Changes between Initial Version and Version 1 of Ticket #3102


Ignore:
Timestamp:
Apr 24, 2020, 9:23:06 AM (6 years ago)
Author:
Eric Pettersen
Comment:

Legend:

Unmodified
Added
Removed
Modified

  • Ticket #3102

    • Property Component Unassigned → Volume Data
    • Property Owner set to Tom Goddard
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → assigned
    • Property Summary ChimeraX bug report submission → volume subregion: 'NoneType' object has no attribute 'size'

  • Ticket #3102 – Description

    initial v1  
    68376837See log for complete Python traceback. 
    68386838 
     6839
     6840[lots of these deleted]
     6841
    68396842Traceback (most recent call last): 
    68406843File
    … …  
    71617164See log for complete Python traceback. 
    71627165 
     7166
     7167Window position QRect(689,1069 100x30) outside any known screen, using primary
     7168screen 
     7169
    71637170Traceback (most recent call last): 
    71647171File
    … …  
    81338140See log for complete Python traceback. 
    81348141 
    8135 Traceback (most recent call last): 
    8136 File
    8137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8138 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8139 drew = self.draw_new_frame() 
    8140 File
    8141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8142 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8143 surface.update_clip_caps(view) 
    8144 File
    8145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8146 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8147 subdivision = settings.clipping_cap_subdivision) 
    8148 File
    8149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8150 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8151 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8152 File
    8153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8154 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8155 cm.set_geometry(varray, narray, tarray) 
    8156 File
    8157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8158 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8159 arv() 
    8160 File
    8161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8162 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8163 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8164 File
    8165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8166 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8167 s.vertex_colors = self.vertex_colors(report_stats) 
    8168 File
    8169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8170 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8171 values, outside = self.volume_values() 
    8172 File
    8173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8174 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8175 return self.offset_values(v, n, tf) 
    8176 File
    8177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8178 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8179 values, outside = self.vertex_values(v, xf) 
    8180 File
    8181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8182 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8183 out_of_bounds_list = True) 
    8184 File
    8185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8186 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8187 subregion, step) 
    8188 File
    8189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8190 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8191 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8192 File
    8193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8194 packages/chimerax/map/volume.py", line 1243, in
    8195 matrix_indices_to_xyz_transform 
    8196 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8197 File
    8198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8199 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8200 r = self.subregion(step, subregion) 
    8201 File
    8202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8203 packages/chimerax/map/volume.py", line 1558, in subregion 
    8204 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8205 AttributeError: 'NoneType' object has no attribute 'size' 
    8206  
    8207 AttributeError: 'NoneType' object has no attribute 'size' 
    8208  
    8209 File
    8210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8211 packages/chimerax/map/volume.py", line 1558, in subregion 
    8212 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8213  
    8214 See log for complete Python traceback. 
    8215  
    8216 Traceback (most recent call last): 
    8217 File
    8218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8219 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8220 drew = self.draw_new_frame() 
    8221 File
    8222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8223 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8224 surface.update_clip_caps(view) 
    8225 File
    8226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8227 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8228 subdivision = settings.clipping_cap_subdivision) 
    8229 File
    8230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8231 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8232 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8233 File
    8234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8235 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8236 cm.set_geometry(varray, narray, tarray) 
    8237 File
    8238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8239 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8240 arv() 
    8241 File
    8242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8243 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8244 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8245 File
    8246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8247 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8248 s.vertex_colors = self.vertex_colors(report_stats) 
    8249 File
    8250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8251 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8252 values, outside = self.volume_values() 
    8253 File
    8254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8255 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8256 return self.offset_values(v, n, tf) 
    8257 File
    8258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8259 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8260 values, outside = self.vertex_values(v, xf) 
    8261 File
    8262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8263 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8264 out_of_bounds_list = True) 
    8265 File
    8266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8267 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8268 subregion, step) 
    8269 File
    8270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8271 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8272 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8273 File
    8274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8275 packages/chimerax/map/volume.py", line 1243, in
    8276 matrix_indices_to_xyz_transform 
    8277 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8278 File
    8279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8280 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8281 r = self.subregion(step, subregion) 
    8282 File
    8283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8284 packages/chimerax/map/volume.py", line 1558, in subregion 
    8285 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8286 AttributeError: 'NoneType' object has no attribute 'size' 
    8287  
    8288 AttributeError: 'NoneType' object has no attribute 'size' 
    8289  
    8290 File
    8291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8292 packages/chimerax/map/volume.py", line 1558, in subregion 
    8293 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8294  
    8295 See log for complete Python traceback. 
    8296  
    8297 Traceback (most recent call last): 
    8298 File
    8299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8300 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8301 drew = self.draw_new_frame() 
    8302 File
    8303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8304 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8305 surface.update_clip_caps(view) 
    8306 File
    8307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8308 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8309 subdivision = settings.clipping_cap_subdivision) 
    8310 File
    8311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8312 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8313 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8314 File
    8315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8316 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8317 cm.set_geometry(varray, narray, tarray) 
    8318 File
    8319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8320 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8321 arv() 
    8322 File
    8323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8324 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8325 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8326 File
    8327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8328 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8329 s.vertex_colors = self.vertex_colors(report_stats) 
    8330 File
    8331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8332 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8333 values, outside = self.volume_values() 
    8334 File
    8335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8336 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8337 return self.offset_values(v, n, tf) 
    8338 File
    8339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8340 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8341 values, outside = self.vertex_values(v, xf) 
    8342 File
    8343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8344 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8345 out_of_bounds_list = True) 
    8346 File
    8347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8348 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8349 subregion, step) 
    8350 File
    8351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8352 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8353 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8354 File
    8355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8356 packages/chimerax/map/volume.py", line 1243, in
    8357 matrix_indices_to_xyz_transform 
    8358 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8359 File
    8360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8361 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8362 r = self.subregion(step, subregion) 
    8363 File
    8364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8365 packages/chimerax/map/volume.py", line 1558, in subregion 
    8366 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8367 AttributeError: 'NoneType' object has no attribute 'size' 
    8368  
    8369 AttributeError: 'NoneType' object has no attribute 'size' 
    8370  
    8371 File
    8372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8373 packages/chimerax/map/volume.py", line 1558, in subregion 
    8374 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8375  
    8376 See log for complete Python traceback. 
    8377  
    8378 Traceback (most recent call last): 
    8379 File
    8380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8381 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8382 drew = self.draw_new_frame() 
    8383 File
    8384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8385 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8386 surface.update_clip_caps(view) 
    8387 File
    8388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8389 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8390 subdivision = settings.clipping_cap_subdivision) 
    8391 File
    8392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8393 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8394 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8395 File
    8396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8397 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8398 cm.set_geometry(varray, narray, tarray) 
    8399 File
    8400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8401 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8402 arv() 
    8403 File
    8404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8405 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8406 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8407 File
    8408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8409 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8410 s.vertex_colors = self.vertex_colors(report_stats) 
    8411 File
    8412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8413 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8414 values, outside = self.volume_values() 
    8415 File
    8416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8417 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8418 return self.offset_values(v, n, tf) 
    8419 File
    8420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8421 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8422 values, outside = self.vertex_values(v, xf) 
    8423 File
    8424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8425 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8426 out_of_bounds_list = True) 
    8427 File
    8428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8429 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8430 subregion, step) 
    8431 File
    8432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8433 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8434 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8435 File
    8436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8437 packages/chimerax/map/volume.py", line 1243, in
    8438 matrix_indices_to_xyz_transform 
    8439 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8440 File
    8441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8442 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8443 r = self.subregion(step, subregion) 
    8444 File
    8445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8446 packages/chimerax/map/volume.py", line 1558, in subregion 
    8447 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8448 AttributeError: 'NoneType' object has no attribute 'size' 
    8449  
    8450 AttributeError: 'NoneType' object has no attribute 'size' 
    8451  
    8452 File
    8453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8454 packages/chimerax/map/volume.py", line 1558, in subregion 
    8455 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8456  
    8457 See log for complete Python traceback. 
    8458  
    8459 Traceback (most recent call last): 
    8460 File
    8461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8462 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8463 drew = self.draw_new_frame() 
    8464 File
    8465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8466 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8467 surface.update_clip_caps(view) 
    8468 File
    8469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8470 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8471 subdivision = settings.clipping_cap_subdivision) 
    8472 File
    8473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8474 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8475 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8476 File
    8477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8478 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8479 cm.set_geometry(varray, narray, tarray) 
    8480 File
    8481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8482 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8483 arv() 
    8484 File
    8485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8486 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8487 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8488 File
    8489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8490 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8491 s.vertex_colors = self.vertex_colors(report_stats) 
    8492 File
    8493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8494 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8495 values, outside = self.volume_values() 
    8496 File
    8497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8498 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8499 return self.offset_values(v, n, tf) 
    8500 File
    8501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8502 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8503 values, outside = self.vertex_values(v, xf) 
    8504 File
    8505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8506 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8507 out_of_bounds_list = True) 
    8508 File
    8509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8510 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8511 subregion, step) 
    8512 File
    8513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8514 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8515 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8516 File
    8517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8518 packages/chimerax/map/volume.py", line 1243, in
    8519 matrix_indices_to_xyz_transform 
    8520 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8521 File
    8522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8523 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8524 r = self.subregion(step, subregion) 
    8525 File
    8526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8527 packages/chimerax/map/volume.py", line 1558, in subregion 
    8528 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8529 AttributeError: 'NoneType' object has no attribute 'size' 
    8530  
    8531 AttributeError: 'NoneType' object has no attribute 'size' 
    8532  
    8533 File
    8534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8535 packages/chimerax/map/volume.py", line 1558, in subregion 
    8536 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8537  
    8538 See log for complete Python traceback. 
    8539  
    8540 Traceback (most recent call last): 
    8541 File
    8542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8543 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8544 drew = self.draw_new_frame() 
    8545 File
    8546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8547 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8548 surface.update_clip_caps(view) 
    8549 File
    8550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8551 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8552 subdivision = settings.clipping_cap_subdivision) 
    8553 File
    8554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8555 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8556 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8557 File
    8558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8559 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8560 cm.set_geometry(varray, narray, tarray) 
    8561 File
    8562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8563 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8564 arv() 
    8565 File
    8566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8567 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8568 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8569 File
    8570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8571 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8572 s.vertex_colors = self.vertex_colors(report_stats) 
    8573 File
    8574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8575 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8576 values, outside = self.volume_values() 
    8577 File
    8578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8579 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8580 return self.offset_values(v, n, tf) 
    8581 File
    8582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8583 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8584 values, outside = self.vertex_values(v, xf) 
    8585 File
    8586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8587 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8588 out_of_bounds_list = True) 
    8589 File
    8590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8591 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8592 subregion, step) 
    8593 File
    8594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8595 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8596 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8597 File
    8598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8599 packages/chimerax/map/volume.py", line 1243, in
    8600 matrix_indices_to_xyz_transform 
    8601 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8602 File
    8603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8604 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8605 r = self.subregion(step, subregion) 
    8606 File
    8607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8608 packages/chimerax/map/volume.py", line 1558, in subregion 
    8609 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8610 AttributeError: 'NoneType' object has no attribute 'size' 
    8611  
    8612 AttributeError: 'NoneType' object has no attribute 'size' 
    8613  
    8614 File
    8615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8616 packages/chimerax/map/volume.py", line 1558, in subregion 
    8617 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8618  
    8619 See log for complete Python traceback. 
    8620  
    8621 Traceback (most recent call last): 
    8622 File
    8623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8624 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8625 drew = self.draw_new_frame() 
    8626 File
    8627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8628 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8629 surface.update_clip_caps(view) 
    8630 File
    8631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8632 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8633 subdivision = settings.clipping_cap_subdivision) 
    8634 File
    8635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8636 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8637 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8638 File
    8639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8640 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8641 cm.set_geometry(varray, narray, tarray) 
    8642 File
    8643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8644 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8645 arv() 
    8646 File
    8647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8648 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8649 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8650 File
    8651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8652 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8653 s.vertex_colors = self.vertex_colors(report_stats) 
    8654 File
    8655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8656 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8657 values, outside = self.volume_values() 
    8658 File
    8659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8660 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8661 return self.offset_values(v, n, tf) 
    8662 File
    8663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8664 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8665 values, outside = self.vertex_values(v, xf) 
    8666 File
    8667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8668 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8669 out_of_bounds_list = True) 
    8670 File
    8671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8672 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8673 subregion, step) 
    8674 File
    8675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8676 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8677 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8678 File
    8679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8680 packages/chimerax/map/volume.py", line 1243, in
    8681 matrix_indices_to_xyz_transform 
    8682 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8683 File
    8684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8685 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8686 r = self.subregion(step, subregion) 
    8687 File
    8688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8689 packages/chimerax/map/volume.py", line 1558, in subregion 
    8690 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8691 AttributeError: 'NoneType' object has no attribute 'size' 
    8692  
    8693 AttributeError: 'NoneType' object has no attribute 'size' 
    8694  
    8695 File
    8696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8697 packages/chimerax/map/volume.py", line 1558, in subregion 
    8698 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8699  
    8700 See log for complete Python traceback. 
    8701  
    8702 Traceback (most recent call last): 
    8703 File
    8704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8705 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8706 drew = self.draw_new_frame() 
    8707 File
    8708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8709 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8710 surface.update_clip_caps(view) 
    8711 File
    8712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8713 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8714 subdivision = settings.clipping_cap_subdivision) 
    8715 File
    8716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8717 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8718 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8719 File
    8720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8721 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8722 cm.set_geometry(varray, narray, tarray) 
    8723 File
    8724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8725 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8726 arv() 
    8727 File
    8728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8729 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8730 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8731 File
    8732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8733 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8734 s.vertex_colors = self.vertex_colors(report_stats) 
    8735 File
    8736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8737 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8738 values, outside = self.volume_values() 
    8739 File
    8740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8741 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8742 return self.offset_values(v, n, tf) 
    8743 File
    8744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8745 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8746 values, outside = self.vertex_values(v, xf) 
    8747 File
    8748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8749 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8750 out_of_bounds_list = True) 
    8751 File
    8752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8753 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8754 subregion, step) 
    8755 File
    8756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8757 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8758 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8759 File
    8760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8761 packages/chimerax/map/volume.py", line 1243, in
    8762 matrix_indices_to_xyz_transform 
    8763 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8764 File
    8765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8766 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8767 r = self.subregion(step, subregion) 
    8768 File
    8769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8770 packages/chimerax/map/volume.py", line 1558, in subregion 
    8771 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8772 AttributeError: 'NoneType' object has no attribute 'size' 
    8773  
    8774 AttributeError: 'NoneType' object has no attribute 'size' 
    8775  
    8776 File
    8777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8778 packages/chimerax/map/volume.py", line 1558, in subregion 
    8779 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8780  
    8781 See log for complete Python traceback. 
    8782  
    8783 Traceback (most recent call last): 
    8784 File
    8785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8786 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8787 drew = self.draw_new_frame() 
    8788 File
    8789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8790 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8791 surface.update_clip_caps(view) 
    8792 File
    8793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8794 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8795 subdivision = settings.clipping_cap_subdivision) 
    8796 File
    8797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8798 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8799 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8800 File
    8801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8802 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8803 cm.set_geometry(varray, narray, tarray) 
    8804 File
    8805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8806 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8807 arv() 
    8808 File
    8809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8810 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8811 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8812 File
    8813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8814 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8815 s.vertex_colors = self.vertex_colors(report_stats) 
    8816 File
    8817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8818 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8819 values, outside = self.volume_values() 
    8820 File
    8821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8822 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8823 return self.offset_values(v, n, tf) 
    8824 File
    8825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8826 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8827 values, outside = self.vertex_values(v, xf) 
    8828 File
    8829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8830 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8831 out_of_bounds_list = True) 
    8832 File
    8833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8834 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8835 subregion, step) 
    8836 File
    8837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8838 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8839 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8840 File
    8841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8842 packages/chimerax/map/volume.py", line 1243, in
    8843 matrix_indices_to_xyz_transform 
    8844 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8845 File
    8846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8847 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8848 r = self.subregion(step, subregion) 
    8849 File
    8850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8851 packages/chimerax/map/volume.py", line 1558, in subregion 
    8852 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8853 AttributeError: 'NoneType' object has no attribute 'size' 
    8854  
    8855 AttributeError: 'NoneType' object has no attribute 'size' 
    8856  
    8857 File
    8858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8859 packages/chimerax/map/volume.py", line 1558, in subregion 
    8860 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8861  
    8862 See log for complete Python traceback. 
    8863  
    8864 Traceback (most recent call last): 
    8865 File
    8866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8867 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8868 drew = self.draw_new_frame() 
    8869 File
    8870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8871 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8872 surface.update_clip_caps(view) 
    8873 File
    8874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8875 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8876 subdivision = settings.clipping_cap_subdivision) 
    8877 File
    8878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8879 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8880 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8881 File
    8882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8883 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8884 cm.set_geometry(varray, narray, tarray) 
    8885 File
    8886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8887 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8888 arv() 
    8889 File
    8890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8891 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8892 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8893 File
    8894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8895 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8896 s.vertex_colors = self.vertex_colors(report_stats) 
    8897 File
    8898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8899 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8900 values, outside = self.volume_values() 
    8901 File
    8902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8903 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8904 return self.offset_values(v, n, tf) 
    8905 File
    8906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8907 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8908 values, outside = self.vertex_values(v, xf) 
    8909 File
    8910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8911 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8912 out_of_bounds_list = True) 
    8913 File
    8914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8915 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8916 subregion, step) 
    8917 File
    8918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8919 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    8920 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    8921 File
    8922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8923 packages/chimerax/map/volume.py", line 1243, in
    8924 matrix_indices_to_xyz_transform 
    8925 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    8926 File
    8927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8928 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    8929 r = self.subregion(step, subregion) 
    8930 File
    8931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8932 packages/chimerax/map/volume.py", line 1558, in subregion 
    8933 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8934 AttributeError: 'NoneType' object has no attribute 'size' 
    8935  
    8936 AttributeError: 'NoneType' object has no attribute 'size' 
    8937  
    8938 File
    8939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8940 packages/chimerax/map/volume.py", line 1558, in subregion 
    8941 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    8942  
    8943 See log for complete Python traceback. 
    8944  
    8945 Traceback (most recent call last): 
    8946 File
    8947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8948 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    8949 drew = self.draw_new_frame() 
    8950 File
    8951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8952 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    8953 surface.update_clip_caps(view) 
    8954 File
    8955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8956 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    8957 subdivision = settings.clipping_cap_subdivision) 
    8958 File
    8959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8960 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    8961 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    8962 File
    8963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8964 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    8965 cm.set_geometry(varray, narray, tarray) 
    8966 File
    8967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8968 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    8969 arv() 
    8970 File
    8971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8972 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    8973 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    8974 File
    8975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8976 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    8977 s.vertex_colors = self.vertex_colors(report_stats) 
    8978 File
    8979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8980 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    8981 values, outside = self.volume_values() 
    8982 File
    8983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8984 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    8985 return self.offset_values(v, n, tf) 
    8986 File
    8987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8988 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    8989 values, outside = self.vertex_values(v, xf) 
    8990 File
    8991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8992 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    8993 out_of_bounds_list = True) 
    8994 File
    8995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    8996 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    8997 subregion, step) 
    8998 File
    8999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9000 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9001 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9002 File
    9003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9004 packages/chimerax/map/volume.py", line 1243, in
    9005 matrix_indices_to_xyz_transform 
    9006 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9007 File
    9008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9009 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9010 r = self.subregion(step, subregion) 
    9011 File
    9012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9013 packages/chimerax/map/volume.py", line 1558, in subregion 
    9014 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9015 AttributeError: 'NoneType' object has no attribute 'size' 
    9016  
    9017 AttributeError: 'NoneType' object has no attribute 'size' 
    9018  
    9019 File
    9020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9021 packages/chimerax/map/volume.py", line 1558, in subregion 
    9022 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9023  
    9024 See log for complete Python traceback. 
    9025  
    9026 Traceback (most recent call last): 
    9027 File
    9028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9029 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9030 drew = self.draw_new_frame() 
    9031 File
    9032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9033 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9034 surface.update_clip_caps(view) 
    9035 File
    9036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9037 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9038 subdivision = settings.clipping_cap_subdivision) 
    9039 File
    9040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9041 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9042 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9043 File
    9044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9045 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9046 cm.set_geometry(varray, narray, tarray) 
    9047 File
    9048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9049 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9050 arv() 
    9051 File
    9052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9053 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9054 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9055 File
    9056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9057 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9058 s.vertex_colors = self.vertex_colors(report_stats) 
    9059 File
    9060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9061 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9062 values, outside = self.volume_values() 
    9063 File
    9064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9065 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9066 return self.offset_values(v, n, tf) 
    9067 File
    9068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9069 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9070 values, outside = self.vertex_values(v, xf) 
    9071 File
    9072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9073 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9074 out_of_bounds_list = True) 
    9075 File
    9076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9077 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9078 subregion, step) 
    9079 File
    9080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9081 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9082 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9083 File
    9084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9085 packages/chimerax/map/volume.py", line 1243, in
    9086 matrix_indices_to_xyz_transform 
    9087 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9088 File
    9089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9090 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9091 r = self.subregion(step, subregion) 
    9092 File
    9093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9094 packages/chimerax/map/volume.py", line 1558, in subregion 
    9095 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9096 AttributeError: 'NoneType' object has no attribute 'size' 
    9097  
    9098 AttributeError: 'NoneType' object has no attribute 'size' 
    9099  
    9100 File
    9101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9102 packages/chimerax/map/volume.py", line 1558, in subregion 
    9103 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9104  
    9105 See log for complete Python traceback. 
    9106  
    9107 Traceback (most recent call last): 
    9108 File
    9109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9110 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9111 drew = self.draw_new_frame() 
    9112 File
    9113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9114 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9115 surface.update_clip_caps(view) 
    9116 File
    9117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9118 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9119 subdivision = settings.clipping_cap_subdivision) 
    9120 File
    9121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9122 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9123 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9124 File
    9125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9126 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9127 cm.set_geometry(varray, narray, tarray) 
    9128 File
    9129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9130 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9131 arv() 
    9132 File
    9133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9134 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9135 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9136 File
    9137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9138 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9139 s.vertex_colors = self.vertex_colors(report_stats) 
    9140 File
    9141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9142 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9143 values, outside = self.volume_values() 
    9144 File
    9145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9146 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9147 return self.offset_values(v, n, tf) 
    9148 File
    9149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9150 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9151 values, outside = self.vertex_values(v, xf) 
    9152 File
    9153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9154 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9155 out_of_bounds_list = True) 
    9156 File
    9157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9158 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9159 subregion, step) 
    9160 File
    9161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9162 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9163 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9164 File
    9165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9166 packages/chimerax/map/volume.py", line 1243, in
    9167 matrix_indices_to_xyz_transform 
    9168 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9169 File
    9170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9171 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9172 r = self.subregion(step, subregion) 
    9173 File
    9174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9175 packages/chimerax/map/volume.py", line 1558, in subregion 
    9176 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9177 AttributeError: 'NoneType' object has no attribute 'size' 
    9178  
    9179 AttributeError: 'NoneType' object has no attribute 'size' 
    9180  
    9181 File
    9182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9183 packages/chimerax/map/volume.py", line 1558, in subregion 
    9184 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9185  
    9186 See log for complete Python traceback. 
    9187  
    9188 Traceback (most recent call last): 
    9189 File
    9190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9191 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9192 drew = self.draw_new_frame() 
    9193 File
    9194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9195 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9196 surface.update_clip_caps(view) 
    9197 File
    9198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9199 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9200 subdivision = settings.clipping_cap_subdivision) 
    9201 File
    9202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9203 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9204 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9205 File
    9206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9207 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9208 cm.set_geometry(varray, narray, tarray) 
    9209 File
    9210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9211 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9212 arv() 
    9213 File
    9214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9215 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9216 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9217 File
    9218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9219 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9220 s.vertex_colors = self.vertex_colors(report_stats) 
    9221 File
    9222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9223 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9224 values, outside = self.volume_values() 
    9225 File
    9226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9227 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9228 return self.offset_values(v, n, tf) 
    9229 File
    9230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9231 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9232 values, outside = self.vertex_values(v, xf) 
    9233 File
    9234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9235 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9236 out_of_bounds_list = True) 
    9237 File
    9238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9239 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9240 subregion, step) 
    9241 File
    9242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9243 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9244 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9245 File
    9246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9247 packages/chimerax/map/volume.py", line 1243, in
    9248 matrix_indices_to_xyz_transform 
    9249 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9250 File
    9251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9252 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9253 r = self.subregion(step, subregion) 
    9254 File
    9255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9256 packages/chimerax/map/volume.py", line 1558, in subregion 
    9257 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9258 AttributeError: 'NoneType' object has no attribute 'size' 
    9259  
    9260 AttributeError: 'NoneType' object has no attribute 'size' 
    9261  
    9262 File
    9263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9264 packages/chimerax/map/volume.py", line 1558, in subregion 
    9265 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9266  
    9267 See log for complete Python traceback. 
    9268  
    9269 Traceback (most recent call last): 
    9270 File
    9271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9272 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9273 drew = self.draw_new_frame() 
    9274 File
    9275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9276 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9277 surface.update_clip_caps(view) 
    9278 File
    9279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9280 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9281 subdivision = settings.clipping_cap_subdivision) 
    9282 File
    9283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9284 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9285 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9286 File
    9287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9288 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9289 cm.set_geometry(varray, narray, tarray) 
    9290 File
    9291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9292 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9293 arv() 
    9294 File
    9295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9296 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9297 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9298 File
    9299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9300 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9301 s.vertex_colors = self.vertex_colors(report_stats) 
    9302 File
    9303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9304 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9305 values, outside = self.volume_values() 
    9306 File
    9307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9308 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9309 return self.offset_values(v, n, tf) 
    9310 File
    9311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9312 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9313 values, outside = self.vertex_values(v, xf) 
    9314 File
    9315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9316 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9317 out_of_bounds_list = True) 
    9318 File
    9319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9320 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9321 subregion, step) 
    9322 File
    9323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9324 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9325 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9326 File
    9327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9328 packages/chimerax/map/volume.py", line 1243, in
    9329 matrix_indices_to_xyz_transform 
    9330 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9331 File
    9332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9333 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9334 r = self.subregion(step, subregion) 
    9335 File
    9336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9337 packages/chimerax/map/volume.py", line 1558, in subregion 
    9338 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9339 AttributeError: 'NoneType' object has no attribute 'size' 
    9340  
    9341 AttributeError: 'NoneType' object has no attribute 'size' 
    9342  
    9343 File
    9344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9345 packages/chimerax/map/volume.py", line 1558, in subregion 
    9346 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9347  
    9348 See log for complete Python traceback. 
    9349  
    9350 Traceback (most recent call last): 
    9351 File
    9352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9353 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9354 drew = self.draw_new_frame() 
    9355 File
    9356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9357 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9358 surface.update_clip_caps(view) 
    9359 File
    9360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9361 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9362 subdivision = settings.clipping_cap_subdivision) 
    9363 File
    9364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9365 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9366 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9367 File
    9368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9369 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9370 cm.set_geometry(varray, narray, tarray) 
    9371 File
    9372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9373 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9374 arv() 
    9375 File
    9376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9377 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9378 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9379 File
    9380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9381 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9382 s.vertex_colors = self.vertex_colors(report_stats) 
    9383 File
    9384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9385 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9386 values, outside = self.volume_values() 
    9387 File
    9388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9389 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9390 return self.offset_values(v, n, tf) 
    9391 File
    9392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9393 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9394 values, outside = self.vertex_values(v, xf) 
    9395 File
    9396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9397 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9398 out_of_bounds_list = True) 
    9399 File
    9400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9401 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9402 subregion, step) 
    9403 File
    9404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9405 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9406 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9407 File
    9408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9409 packages/chimerax/map/volume.py", line 1243, in
    9410 matrix_indices_to_xyz_transform 
    9411 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9412 File
    9413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9414 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9415 r = self.subregion(step, subregion) 
    9416 File
    9417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9418 packages/chimerax/map/volume.py", line 1558, in subregion 
    9419 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9420 AttributeError: 'NoneType' object has no attribute 'size' 
    9421  
    9422 AttributeError: 'NoneType' object has no attribute 'size' 
    9423  
    9424 File
    9425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9426 packages/chimerax/map/volume.py", line 1558, in subregion 
    9427 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9428  
    9429 See log for complete Python traceback. 
    9430  
    9431 Traceback (most recent call last): 
    9432 File
    9433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9434 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9435 drew = self.draw_new_frame() 
    9436 File
    9437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9438 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9439 surface.update_clip_caps(view) 
    9440 File
    9441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9442 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9443 subdivision = settings.clipping_cap_subdivision) 
    9444 File
    9445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9446 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9447 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9448 File
    9449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9450 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9451 cm.set_geometry(varray, narray, tarray) 
    9452 File
    9453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9454 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9455 arv() 
    9456 File
    9457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9458 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9459 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9460 File
    9461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9462 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9463 s.vertex_colors = self.vertex_colors(report_stats) 
    9464 File
    9465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9466 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9467 values, outside = self.volume_values() 
    9468 File
    9469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9470 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9471 return self.offset_values(v, n, tf) 
    9472 File
    9473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9474 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9475 values, outside = self.vertex_values(v, xf) 
    9476 File
    9477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9478 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9479 out_of_bounds_list = True) 
    9480 File
    9481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9482 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9483 subregion, step) 
    9484 File
    9485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9486 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9487 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9488 File
    9489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9490 packages/chimerax/map/volume.py", line 1243, in
    9491 matrix_indices_to_xyz_transform 
    9492 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9493 File
    9494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9495 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9496 r = self.subregion(step, subregion) 
    9497 File
    9498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9499 packages/chimerax/map/volume.py", line 1558, in subregion 
    9500 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9501 AttributeError: 'NoneType' object has no attribute 'size' 
    9502  
    9503 AttributeError: 'NoneType' object has no attribute 'size' 
    9504  
    9505 File
    9506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9507 packages/chimerax/map/volume.py", line 1558, in subregion 
    9508 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9509  
    9510 See log for complete Python traceback. 
    9511  
    9512 Traceback (most recent call last): 
    9513 File
    9514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9515 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9516 drew = self.draw_new_frame() 
    9517 File
    9518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9519 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9520 surface.update_clip_caps(view) 
    9521 File
    9522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9523 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9524 subdivision = settings.clipping_cap_subdivision) 
    9525 File
    9526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9527 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9528 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9529 File
    9530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9531 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9532 cm.set_geometry(varray, narray, tarray) 
    9533 File
    9534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9535 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9536 arv() 
    9537 File
    9538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9539 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9540 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9541 File
    9542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9543 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9544 s.vertex_colors = self.vertex_colors(report_stats) 
    9545 File
    9546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9547 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9548 values, outside = self.volume_values() 
    9549 File
    9550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9551 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9552 return self.offset_values(v, n, tf) 
    9553 File
    9554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9555 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9556 values, outside = self.vertex_values(v, xf) 
    9557 File
    9558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9559 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9560 out_of_bounds_list = True) 
    9561 File
    9562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9563 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9564 subregion, step) 
    9565 File
    9566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9567 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9568 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9569 File
    9570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9571 packages/chimerax/map/volume.py", line 1243, in
    9572 matrix_indices_to_xyz_transform 
    9573 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9574 File
    9575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9576 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9577 r = self.subregion(step, subregion) 
    9578 File
    9579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9580 packages/chimerax/map/volume.py", line 1558, in subregion 
    9581 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9582 AttributeError: 'NoneType' object has no attribute 'size' 
    9583  
    9584 AttributeError: 'NoneType' object has no attribute 'size' 
    9585  
    9586 File
    9587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9588 packages/chimerax/map/volume.py", line 1558, in subregion 
    9589 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9590  
    9591 See log for complete Python traceback. 
    9592  
    9593 Traceback (most recent call last): 
    9594 File
    9595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9596 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9597 drew = self.draw_new_frame() 
    9598 File
    9599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9600 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9601 surface.update_clip_caps(view) 
    9602 File
    9603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9604 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9605 subdivision = settings.clipping_cap_subdivision) 
    9606 File
    9607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9608 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9609 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9610 File
    9611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9612 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9613 cm.set_geometry(varray, narray, tarray) 
    9614 File
    9615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9616 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9617 arv() 
    9618 File
    9619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9620 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9621 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9622 File
    9623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9624 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9625 s.vertex_colors = self.vertex_colors(report_stats) 
    9626 File
    9627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9628 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9629 values, outside = self.volume_values() 
    9630 File
    9631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9632 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9633 return self.offset_values(v, n, tf) 
    9634 File
    9635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9636 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9637 values, outside = self.vertex_values(v, xf) 
    9638 File
    9639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9640 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9641 out_of_bounds_list = True) 
    9642 File
    9643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9644 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9645 subregion, step) 
    9646 File
    9647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9648 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9649 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9650 File
    9651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9652 packages/chimerax/map/volume.py", line 1243, in
    9653 matrix_indices_to_xyz_transform 
    9654 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9655 File
    9656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9657 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9658 r = self.subregion(step, subregion) 
    9659 File
    9660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9661 packages/chimerax/map/volume.py", line 1558, in subregion 
    9662 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9663 AttributeError: 'NoneType' object has no attribute 'size' 
    9664  
    9665 AttributeError: 'NoneType' object has no attribute 'size' 
    9666  
    9667 File
    9668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9669 packages/chimerax/map/volume.py", line 1558, in subregion 
    9670 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9671  
    9672 See log for complete Python traceback. 
    9673  
    9674 Traceback (most recent call last): 
    9675 File
    9676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9677 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9678 drew = self.draw_new_frame() 
    9679 File
    9680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9681 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9682 surface.update_clip_caps(view) 
    9683 File
    9684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9685 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9686 subdivision = settings.clipping_cap_subdivision) 
    9687 File
    9688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9689 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9690 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9691 File
    9692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9693 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9694 cm.set_geometry(varray, narray, tarray) 
    9695 File
    9696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9697 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9698 arv() 
    9699 File
    9700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9701 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9702 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9703 File
    9704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9705 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9706 s.vertex_colors = self.vertex_colors(report_stats) 
    9707 File
    9708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9709 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9710 values, outside = self.volume_values() 
    9711 File
    9712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9713 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9714 return self.offset_values(v, n, tf) 
    9715 File
    9716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9717 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9718 values, outside = self.vertex_values(v, xf) 
    9719 File
    9720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9721 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9722 out_of_bounds_list = True) 
    9723 File
    9724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9725 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9726 subregion, step) 
    9727 File
    9728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9729 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9730 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9731 File
    9732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9733 packages/chimerax/map/volume.py", line 1243, in
    9734 matrix_indices_to_xyz_transform 
    9735 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9736 File
    9737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9738 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9739 r = self.subregion(step, subregion) 
    9740 File
    9741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9742 packages/chimerax/map/volume.py", line 1558, in subregion 
    9743 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9744 AttributeError: 'NoneType' object has no attribute 'size' 
    9745  
    9746 AttributeError: 'NoneType' object has no attribute 'size' 
    9747  
    9748 File
    9749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9750 packages/chimerax/map/volume.py", line 1558, in subregion 
    9751 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9752  
    9753 See log for complete Python traceback. 
    9754  
    9755 Traceback (most recent call last): 
    9756 File
    9757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9758 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9759 drew = self.draw_new_frame() 
    9760 File
    9761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9762 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9763 surface.update_clip_caps(view) 
    9764 File
    9765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9766 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9767 subdivision = settings.clipping_cap_subdivision) 
    9768 File
    9769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9770 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9771 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9772 File
    9773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9774 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9775 cm.set_geometry(varray, narray, tarray) 
    9776 File
    9777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9778 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9779 arv() 
    9780 File
    9781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9782 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9783 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9784 File
    9785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9786 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9787 s.vertex_colors = self.vertex_colors(report_stats) 
    9788 File
    9789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9790 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9791 values, outside = self.volume_values() 
    9792 File
    9793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9794 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9795 return self.offset_values(v, n, tf) 
    9796 File
    9797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9798 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9799 values, outside = self.vertex_values(v, xf) 
    9800 File
    9801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9802 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9803 out_of_bounds_list = True) 
    9804 File
    9805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9806 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9807 subregion, step) 
    9808 File
    9809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9810 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9811 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9812 File
    9813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9814 packages/chimerax/map/volume.py", line 1243, in
    9815 matrix_indices_to_xyz_transform 
    9816 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9817 File
    9818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9819 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9820 r = self.subregion(step, subregion) 
    9821 File
    9822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9823 packages/chimerax/map/volume.py", line 1558, in subregion 
    9824 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9825 AttributeError: 'NoneType' object has no attribute 'size' 
    9826  
    9827 AttributeError: 'NoneType' object has no attribute 'size' 
    9828  
    9829 File
    9830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9831 packages/chimerax/map/volume.py", line 1558, in subregion 
    9832 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9833  
    9834 See log for complete Python traceback. 
    9835  
    9836 Traceback (most recent call last): 
    9837 File
    9838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9839 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9840 drew = self.draw_new_frame() 
    9841 File
    9842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9843 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9844 surface.update_clip_caps(view) 
    9845 File
    9846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9847 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9848 subdivision = settings.clipping_cap_subdivision) 
    9849 File
    9850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9851 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9852 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9853 File
    9854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9855 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9856 cm.set_geometry(varray, narray, tarray) 
    9857 File
    9858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9859 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9860 arv() 
    9861 File
    9862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9863 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9864 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9865 File
    9866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9867 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9868 s.vertex_colors = self.vertex_colors(report_stats) 
    9869 File
    9870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9871 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9872 values, outside = self.volume_values() 
    9873 File
    9874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9875 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9876 return self.offset_values(v, n, tf) 
    9877 File
    9878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9879 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9880 values, outside = self.vertex_values(v, xf) 
    9881 File
    9882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9883 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9884 out_of_bounds_list = True) 
    9885 File
    9886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9887 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9888 subregion, step) 
    9889 File
    9890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9891 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9892 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9893 File
    9894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9895 packages/chimerax/map/volume.py", line 1243, in
    9896 matrix_indices_to_xyz_transform 
    9897 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9898 File
    9899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9900 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9901 r = self.subregion(step, subregion) 
    9902 File
    9903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9904 packages/chimerax/map/volume.py", line 1558, in subregion 
    9905 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9906 AttributeError: 'NoneType' object has no attribute 'size' 
    9907  
    9908 AttributeError: 'NoneType' object has no attribute 'size' 
    9909  
    9910 File
    9911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9912 packages/chimerax/map/volume.py", line 1558, in subregion 
    9913 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9914  
    9915 See log for complete Python traceback. 
    9916  
    9917 Traceback (most recent call last): 
    9918 File
    9919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9920 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    9921 drew = self.draw_new_frame() 
    9922 File
    9923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9924 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    9925 surface.update_clip_caps(view) 
    9926 File
    9927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9928 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    9929 subdivision = settings.clipping_cap_subdivision) 
    9930 File
    9931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9932 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    9933 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    9934 File
    9935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9936 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    9937 cm.set_geometry(varray, narray, tarray) 
    9938 File
    9939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9940 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    9941 arv() 
    9942 File
    9943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9944 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    9945 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    9946 File
    9947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9948 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    9949 s.vertex_colors = self.vertex_colors(report_stats) 
    9950 File
    9951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9952 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    9953 values, outside = self.volume_values() 
    9954 File
    9955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9956 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    9957 return self.offset_values(v, n, tf) 
    9958 File
    9959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9960 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    9961 values, outside = self.vertex_values(v, xf) 
    9962 File
    9963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9964 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    9965 out_of_bounds_list = True) 
    9966 File
    9967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9968 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    9969 subregion, step) 
    9970 File
    9971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9972 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    9973 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    9974 File
    9975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9976 packages/chimerax/map/volume.py", line 1243, in
    9977 matrix_indices_to_xyz_transform 
    9978 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    9979 File
    9980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9981 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    9982 r = self.subregion(step, subregion) 
    9983 File
    9984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9985 packages/chimerax/map/volume.py", line 1558, in subregion 
    9986 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9987 AttributeError: 'NoneType' object has no attribute 'size' 
    9988  
    9989 AttributeError: 'NoneType' object has no attribute 'size' 
    9990  
    9991 File
    9992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    9993 packages/chimerax/map/volume.py", line 1558, in subregion 
    9994 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    9995  
    9996 See log for complete Python traceback. 
    9997  
    9998 Traceback (most recent call last): 
    9999 File
    10000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10001 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10002 drew = self.draw_new_frame() 
    10003 File
    10004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10005 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10006 surface.update_clip_caps(view) 
    10007 File
    10008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10009 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10010 subdivision = settings.clipping_cap_subdivision) 
    10011 File
    10012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10013 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10014 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10015 File
    10016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10017 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10018 cm.set_geometry(varray, narray, tarray) 
    10019 File
    10020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10021 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10022 arv() 
    10023 File
    10024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10025 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10026 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10027 File
    10028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10029 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10030 s.vertex_colors = self.vertex_colors(report_stats) 
    10031 File
    10032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10033 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10034 values, outside = self.volume_values() 
    10035 File
    10036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10037 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10038 return self.offset_values(v, n, tf) 
    10039 File
    10040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10041 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10042 values, outside = self.vertex_values(v, xf) 
    10043 File
    10044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10045 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10046 out_of_bounds_list = True) 
    10047 File
    10048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10049 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10050 subregion, step) 
    10051 File
    10052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10053 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10054 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10055 File
    10056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10057 packages/chimerax/map/volume.py", line 1243, in
    10058 matrix_indices_to_xyz_transform 
    10059 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10060 File
    10061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10062 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10063 r = self.subregion(step, subregion) 
    10064 File
    10065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10066 packages/chimerax/map/volume.py", line 1558, in subregion 
    10067 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10068 AttributeError: 'NoneType' object has no attribute 'size' 
    10069  
    10070 AttributeError: 'NoneType' object has no attribute 'size' 
    10071  
    10072 File
    10073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10074 packages/chimerax/map/volume.py", line 1558, in subregion 
    10075 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10076  
    10077 See log for complete Python traceback. 
    10078  
    10079 Traceback (most recent call last): 
    10080 File
    10081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10082 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10083 drew = self.draw_new_frame() 
    10084 File
    10085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10086 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10087 surface.update_clip_caps(view) 
    10088 File
    10089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10090 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10091 subdivision = settings.clipping_cap_subdivision) 
    10092 File
    10093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10094 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10095 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10096 File
    10097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10098 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10099 cm.set_geometry(varray, narray, tarray) 
    10100 File
    10101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10102 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10103 arv() 
    10104 File
    10105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10106 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10107 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10108 File
    10109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10110 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10111 s.vertex_colors = self.vertex_colors(report_stats) 
    10112 File
    10113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10114 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10115 values, outside = self.volume_values() 
    10116 File
    10117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10118 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10119 return self.offset_values(v, n, tf) 
    10120 File
    10121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10122 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10123 values, outside = self.vertex_values(v, xf) 
    10124 File
    10125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10126 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10127 out_of_bounds_list = True) 
    10128 File
    10129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10130 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10131 subregion, step) 
    10132 File
    10133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10134 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10135 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10136 File
    10137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10138 packages/chimerax/map/volume.py", line 1243, in
    10139 matrix_indices_to_xyz_transform 
    10140 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10141 File
    10142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10143 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10144 r = self.subregion(step, subregion) 
    10145 File
    10146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10147 packages/chimerax/map/volume.py", line 1558, in subregion 
    10148 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10149 AttributeError: 'NoneType' object has no attribute 'size' 
    10150  
    10151 AttributeError: 'NoneType' object has no attribute 'size' 
    10152  
    10153 File
    10154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10155 packages/chimerax/map/volume.py", line 1558, in subregion 
    10156 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10157  
    10158 See log for complete Python traceback. 
    10159  
    10160 Traceback (most recent call last): 
    10161 File
    10162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10163 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10164 drew = self.draw_new_frame() 
    10165 File
    10166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10167 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10168 surface.update_clip_caps(view) 
    10169 File
    10170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10171 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10172 subdivision = settings.clipping_cap_subdivision) 
    10173 File
    10174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10175 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10176 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10177 File
    10178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10179 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10180 cm.set_geometry(varray, narray, tarray) 
    10181 File
    10182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10183 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10184 arv() 
    10185 File
    10186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10187 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10188 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10189 File
    10190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10191 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10192 s.vertex_colors = self.vertex_colors(report_stats) 
    10193 File
    10194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10195 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10196 values, outside = self.volume_values() 
    10197 File
    10198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10199 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10200 return self.offset_values(v, n, tf) 
    10201 File
    10202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10203 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10204 values, outside = self.vertex_values(v, xf) 
    10205 File
    10206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10207 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10208 out_of_bounds_list = True) 
    10209 File
    10210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10211 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10212 subregion, step) 
    10213 File
    10214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10215 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10216 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10217 File
    10218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10219 packages/chimerax/map/volume.py", line 1243, in
    10220 matrix_indices_to_xyz_transform 
    10221 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10222 File
    10223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10224 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10225 r = self.subregion(step, subregion) 
    10226 File
    10227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10228 packages/chimerax/map/volume.py", line 1558, in subregion 
    10229 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10230 AttributeError: 'NoneType' object has no attribute 'size' 
    10231  
    10232 AttributeError: 'NoneType' object has no attribute 'size' 
    10233  
    10234 File
    10235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10236 packages/chimerax/map/volume.py", line 1558, in subregion 
    10237 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10238  
    10239 See log for complete Python traceback. 
    10240  
    10241 Traceback (most recent call last): 
    10242 File
    10243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10244 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10245 drew = self.draw_new_frame() 
    10246 File
    10247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10248 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10249 surface.update_clip_caps(view) 
    10250 File
    10251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10252 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10253 subdivision = settings.clipping_cap_subdivision) 
    10254 File
    10255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10256 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10257 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10258 File
    10259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10260 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10261 cm.set_geometry(varray, narray, tarray) 
    10262 File
    10263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10264 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10265 arv() 
    10266 File
    10267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10268 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10269 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10270 File
    10271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10272 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10273 s.vertex_colors = self.vertex_colors(report_stats) 
    10274 File
    10275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10276 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10277 values, outside = self.volume_values() 
    10278 File
    10279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10280 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10281 return self.offset_values(v, n, tf) 
    10282 File
    10283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10284 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10285 values, outside = self.vertex_values(v, xf) 
    10286 File
    10287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10288 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10289 out_of_bounds_list = True) 
    10290 File
    10291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10292 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10293 subregion, step) 
    10294 File
    10295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10296 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10297 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10298 File
    10299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10300 packages/chimerax/map/volume.py", line 1243, in
    10301 matrix_indices_to_xyz_transform 
    10302 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10303 File
    10304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10305 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10306 r = self.subregion(step, subregion) 
    10307 File
    10308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10309 packages/chimerax/map/volume.py", line 1558, in subregion 
    10310 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10311 AttributeError: 'NoneType' object has no attribute 'size' 
    10312  
    10313 AttributeError: 'NoneType' object has no attribute 'size' 
    10314  
    10315 File
    10316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10317 packages/chimerax/map/volume.py", line 1558, in subregion 
    10318 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10319  
    10320 See log for complete Python traceback. 
    10321  
    10322 Traceback (most recent call last): 
    10323 File
    10324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10325 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10326 drew = self.draw_new_frame() 
    10327 File
    10328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10329 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10330 surface.update_clip_caps(view) 
    10331 File
    10332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10333 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10334 subdivision = settings.clipping_cap_subdivision) 
    10335 File
    10336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10337 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10338 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10339 File
    10340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10341 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10342 cm.set_geometry(varray, narray, tarray) 
    10343 File
    10344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10345 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10346 arv() 
    10347 File
    10348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10349 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10350 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10351 File
    10352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10353 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10354 s.vertex_colors = self.vertex_colors(report_stats) 
    10355 File
    10356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10357 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10358 values, outside = self.volume_values() 
    10359 File
    10360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10361 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10362 return self.offset_values(v, n, tf) 
    10363 File
    10364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10365 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10366 values, outside = self.vertex_values(v, xf) 
    10367 File
    10368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10369 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10370 out_of_bounds_list = True) 
    10371 File
    10372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10373 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10374 subregion, step) 
    10375 File
    10376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10377 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10378 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10379 File
    10380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10381 packages/chimerax/map/volume.py", line 1243, in
    10382 matrix_indices_to_xyz_transform 
    10383 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10384 File
    10385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10386 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10387 r = self.subregion(step, subregion) 
    10388 File
    10389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10390 packages/chimerax/map/volume.py", line 1558, in subregion 
    10391 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10392 AttributeError: 'NoneType' object has no attribute 'size' 
    10393  
    10394 AttributeError: 'NoneType' object has no attribute 'size' 
    10395  
    10396 File
    10397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10398 packages/chimerax/map/volume.py", line 1558, in subregion 
    10399 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10400  
    10401 See log for complete Python traceback. 
    10402  
    10403 Traceback (most recent call last): 
    10404 File
    10405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10406 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10407 drew = self.draw_new_frame() 
    10408 File
    10409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10410 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10411 surface.update_clip_caps(view) 
    10412 File
    10413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10414 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10415 subdivision = settings.clipping_cap_subdivision) 
    10416 File
    10417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10418 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10419 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10420 File
    10421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10422 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10423 cm.set_geometry(varray, narray, tarray) 
    10424 File
    10425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10426 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10427 arv() 
    10428 File
    10429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10430 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10431 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10432 File
    10433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10434 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10435 s.vertex_colors = self.vertex_colors(report_stats) 
    10436 File
    10437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10438 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10439 values, outside = self.volume_values() 
    10440 File
    10441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10442 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10443 return self.offset_values(v, n, tf) 
    10444 File
    10445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10446 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10447 values, outside = self.vertex_values(v, xf) 
    10448 File
    10449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10450 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10451 out_of_bounds_list = True) 
    10452 File
    10453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10454 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10455 subregion, step) 
    10456 File
    10457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10458 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10459 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10460 File
    10461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10462 packages/chimerax/map/volume.py", line 1243, in
    10463 matrix_indices_to_xyz_transform 
    10464 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10465 File
    10466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10467 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10468 r = self.subregion(step, subregion) 
    10469 File
    10470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10471 packages/chimerax/map/volume.py", line 1558, in subregion 
    10472 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10473 AttributeError: 'NoneType' object has no attribute 'size' 
    10474  
    10475 AttributeError: 'NoneType' object has no attribute 'size' 
    10476  
    10477 File
    10478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10479 packages/chimerax/map/volume.py", line 1558, in subregion 
    10480 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10481  
    10482 See log for complete Python traceback. 
    10483  
    10484 Traceback (most recent call last): 
    10485 File
    10486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10487 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10488 drew = self.draw_new_frame() 
    10489 File
    10490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10491 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10492 surface.update_clip_caps(view) 
    10493 File
    10494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10495 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10496 subdivision = settings.clipping_cap_subdivision) 
    10497 File
    10498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10499 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10500 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10501 File
    10502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10503 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10504 cm.set_geometry(varray, narray, tarray) 
    10505 File
    10506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10507 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10508 arv() 
    10509 File
    10510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10511 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10512 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10513 File
    10514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10515 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10516 s.vertex_colors = self.vertex_colors(report_stats) 
    10517 File
    10518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10519 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10520 values, outside = self.volume_values() 
    10521 File
    10522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10523 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10524 return self.offset_values(v, n, tf) 
    10525 File
    10526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10527 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10528 values, outside = self.vertex_values(v, xf) 
    10529 File
    10530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10531 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10532 out_of_bounds_list = True) 
    10533 File
    10534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10535 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10536 subregion, step) 
    10537 File
    10538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10539 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10540 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10541 File
    10542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10543 packages/chimerax/map/volume.py", line 1243, in
    10544 matrix_indices_to_xyz_transform 
    10545 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10546 File
    10547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10548 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10549 r = self.subregion(step, subregion) 
    10550 File
    10551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10552 packages/chimerax/map/volume.py", line 1558, in subregion 
    10553 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10554 AttributeError: 'NoneType' object has no attribute 'size' 
    10555  
    10556 AttributeError: 'NoneType' object has no attribute 'size' 
    10557  
    10558 File
    10559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10560 packages/chimerax/map/volume.py", line 1558, in subregion 
    10561 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10562  
    10563 See log for complete Python traceback. 
    10564  
    10565 Traceback (most recent call last): 
    10566 File
    10567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10568 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10569 drew = self.draw_new_frame() 
    10570 File
    10571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10572 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10573 surface.update_clip_caps(view) 
    10574 File
    10575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10576 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10577 subdivision = settings.clipping_cap_subdivision) 
    10578 File
    10579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10580 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10581 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10582 File
    10583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10584 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10585 cm.set_geometry(varray, narray, tarray) 
    10586 File
    10587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10588 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10589 arv() 
    10590 File
    10591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10592 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10593 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10594 File
    10595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10596 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10597 s.vertex_colors = self.vertex_colors(report_stats) 
    10598 File
    10599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10600 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10601 values, outside = self.volume_values() 
    10602 File
    10603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10604 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10605 return self.offset_values(v, n, tf) 
    10606 File
    10607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10608 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10609 values, outside = self.vertex_values(v, xf) 
    10610 File
    10611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10612 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10613 out_of_bounds_list = True) 
    10614 File
    10615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10616 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10617 subregion, step) 
    10618 File
    10619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10620 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10621 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10622 File
    10623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10624 packages/chimerax/map/volume.py", line 1243, in
    10625 matrix_indices_to_xyz_transform 
    10626 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10627 File
    10628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10629 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10630 r = self.subregion(step, subregion) 
    10631 File
    10632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10633 packages/chimerax/map/volume.py", line 1558, in subregion 
    10634 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10635 AttributeError: 'NoneType' object has no attribute 'size' 
    10636  
    10637 AttributeError: 'NoneType' object has no attribute 'size' 
    10638  
    10639 File
    10640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10641 packages/chimerax/map/volume.py", line 1558, in subregion 
    10642 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10643  
    10644 See log for complete Python traceback. 
    10645  
    10646 Traceback (most recent call last): 
    10647 File
    10648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10649 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10650 drew = self.draw_new_frame() 
    10651 File
    10652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10653 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10654 surface.update_clip_caps(view) 
    10655 File
    10656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10657 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10658 subdivision = settings.clipping_cap_subdivision) 
    10659 File
    10660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10661 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10662 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10663 File
    10664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10665 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10666 cm.set_geometry(varray, narray, tarray) 
    10667 File
    10668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10669 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10670 arv() 
    10671 File
    10672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10673 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10674 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10675 File
    10676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10677 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10678 s.vertex_colors = self.vertex_colors(report_stats) 
    10679 File
    10680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10681 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10682 values, outside = self.volume_values() 
    10683 File
    10684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10685 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10686 return self.offset_values(v, n, tf) 
    10687 File
    10688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10689 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10690 values, outside = self.vertex_values(v, xf) 
    10691 File
    10692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10693 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10694 out_of_bounds_list = True) 
    10695 File
    10696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10697 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10698 subregion, step) 
    10699 File
    10700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10701 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10702 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10703 File
    10704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10705 packages/chimerax/map/volume.py", line 1243, in
    10706 matrix_indices_to_xyz_transform 
    10707 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10708 File
    10709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10710 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10711 r = self.subregion(step, subregion) 
    10712 File
    10713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10714 packages/chimerax/map/volume.py", line 1558, in subregion 
    10715 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10716 AttributeError: 'NoneType' object has no attribute 'size' 
    10717  
    10718 AttributeError: 'NoneType' object has no attribute 'size' 
    10719  
    10720 File
    10721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10722 packages/chimerax/map/volume.py", line 1558, in subregion 
    10723 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10724  
    10725 See log for complete Python traceback. 
    10726  
    10727 Traceback (most recent call last): 
    10728 File
    10729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10730 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10731 drew = self.draw_new_frame() 
    10732 File
    10733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10734 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10735 surface.update_clip_caps(view) 
    10736 File
    10737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10738 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10739 subdivision = settings.clipping_cap_subdivision) 
    10740 File
    10741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10742 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10743 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10744 File
    10745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10746 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10747 cm.set_geometry(varray, narray, tarray) 
    10748 File
    10749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10750 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10751 arv() 
    10752 File
    10753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10754 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10755 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10756 File
    10757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10758 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10759 s.vertex_colors = self.vertex_colors(report_stats) 
    10760 File
    10761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10762 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10763 values, outside = self.volume_values() 
    10764 File
    10765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10766 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10767 return self.offset_values(v, n, tf) 
    10768 File
    10769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10770 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10771 values, outside = self.vertex_values(v, xf) 
    10772 File
    10773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10774 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10775 out_of_bounds_list = True) 
    10776 File
    10777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10778 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10779 subregion, step) 
    10780 File
    10781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10782 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10783 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10784 File
    10785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10786 packages/chimerax/map/volume.py", line 1243, in
    10787 matrix_indices_to_xyz_transform 
    10788 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10789 File
    10790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10791 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10792 r = self.subregion(step, subregion) 
    10793 File
    10794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10795 packages/chimerax/map/volume.py", line 1558, in subregion 
    10796 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10797 AttributeError: 'NoneType' object has no attribute 'size' 
    10798  
    10799 AttributeError: 'NoneType' object has no attribute 'size' 
    10800  
    10801 File
    10802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10803 packages/chimerax/map/volume.py", line 1558, in subregion 
    10804 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10805  
    10806 See log for complete Python traceback. 
    10807  
    10808 Traceback (most recent call last): 
    10809 File
    10810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10811 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10812 drew = self.draw_new_frame() 
    10813 File
    10814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10815 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10816 surface.update_clip_caps(view) 
    10817 File
    10818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10819 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10820 subdivision = settings.clipping_cap_subdivision) 
    10821 File
    10822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10823 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10824 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10825 File
    10826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10827 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10828 cm.set_geometry(varray, narray, tarray) 
    10829 File
    10830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10831 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10832 arv() 
    10833 File
    10834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10835 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10836 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10837 File
    10838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10839 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10840 s.vertex_colors = self.vertex_colors(report_stats) 
    10841 File
    10842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10843 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10844 values, outside = self.volume_values() 
    10845 File
    10846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10847 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10848 return self.offset_values(v, n, tf) 
    10849 File
    10850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10851 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10852 values, outside = self.vertex_values(v, xf) 
    10853 File
    10854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10855 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10856 out_of_bounds_list = True) 
    10857 File
    10858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10859 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10860 subregion, step) 
    10861 File
    10862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10863 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10864 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10865 File
    10866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10867 packages/chimerax/map/volume.py", line 1243, in
    10868 matrix_indices_to_xyz_transform 
    10869 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10870 File
    10871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10872 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10873 r = self.subregion(step, subregion) 
    10874 File
    10875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10876 packages/chimerax/map/volume.py", line 1558, in subregion 
    10877 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10878 AttributeError: 'NoneType' object has no attribute 'size' 
    10879  
    10880 AttributeError: 'NoneType' object has no attribute 'size' 
    10881  
    10882 File
    10883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10884 packages/chimerax/map/volume.py", line 1558, in subregion 
    10885 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10886  
    10887 See log for complete Python traceback. 
    10888  
    10889 Traceback (most recent call last): 
    10890 File
    10891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10892 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10893 drew = self.draw_new_frame() 
    10894 File
    10895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10896 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10897 surface.update_clip_caps(view) 
    10898 File
    10899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10900 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10901 subdivision = settings.clipping_cap_subdivision) 
    10902 File
    10903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10904 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10905 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10906 File
    10907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10908 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10909 cm.set_geometry(varray, narray, tarray) 
    10910 File
    10911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10912 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10913 arv() 
    10914 File
    10915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10916 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10917 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10918 File
    10919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10920 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    10921 s.vertex_colors = self.vertex_colors(report_stats) 
    10922 File
    10923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10924 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    10925 values, outside = self.volume_values() 
    10926 File
    10927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10928 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    10929 return self.offset_values(v, n, tf) 
    10930 File
    10931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10932 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    10933 values, outside = self.vertex_values(v, xf) 
    10934 File
    10935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10936 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    10937 out_of_bounds_list = True) 
    10938 File
    10939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10940 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    10941 subregion, step) 
    10942 File
    10943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10944 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    10945 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    10946 File
    10947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10948 packages/chimerax/map/volume.py", line 1243, in
    10949 matrix_indices_to_xyz_transform 
    10950 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    10951 File
    10952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10953 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    10954 r = self.subregion(step, subregion) 
    10955 File
    10956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10957 packages/chimerax/map/volume.py", line 1558, in subregion 
    10958 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10959 AttributeError: 'NoneType' object has no attribute 'size' 
    10960  
    10961 AttributeError: 'NoneType' object has no attribute 'size' 
    10962  
    10963 File
    10964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10965 packages/chimerax/map/volume.py", line 1558, in subregion 
    10966 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    10967  
    10968 See log for complete Python traceback. 
    10969  
    10970 Traceback (most recent call last): 
    10971 File
    10972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10973 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    10974 drew = self.draw_new_frame() 
    10975 File
    10976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10977 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    10978 surface.update_clip_caps(view) 
    10979 File
    10980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10981 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    10982 subdivision = settings.clipping_cap_subdivision) 
    10983 File
    10984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10985 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    10986 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    10987 File
    10988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10989 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    10990 cm.set_geometry(varray, narray, tarray) 
    10991 File
    10992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10993 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    10994 arv() 
    10995 File
    10996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    10997 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    10998 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    10999 File
    11000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11001 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11002 s.vertex_colors = self.vertex_colors(report_stats) 
    11003 File
    11004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11005 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11006 values, outside = self.volume_values() 
    11007 File
    11008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11009 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11010 return self.offset_values(v, n, tf) 
    11011 File
    11012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11013 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11014 values, outside = self.vertex_values(v, xf) 
    11015 File
    11016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11017 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11018 out_of_bounds_list = True) 
    11019 File
    11020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11021 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11022 subregion, step) 
    11023 File
    11024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11025 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11026 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11027 File
    11028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11029 packages/chimerax/map/volume.py", line 1243, in
    11030 matrix_indices_to_xyz_transform 
    11031 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11032 File
    11033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11034 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11035 r = self.subregion(step, subregion) 
    11036 File
    11037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11038 packages/chimerax/map/volume.py", line 1558, in subregion 
    11039 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11040 AttributeError: 'NoneType' object has no attribute 'size' 
    11041  
    11042 AttributeError: 'NoneType' object has no attribute 'size' 
    11043  
    11044 File
    11045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11046 packages/chimerax/map/volume.py", line 1558, in subregion 
    11047 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11048  
    11049 See log for complete Python traceback. 
    11050  
    11051 Traceback (most recent call last): 
    11052 File
    11053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11054 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11055 drew = self.draw_new_frame() 
    11056 File
    11057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11058 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11059 surface.update_clip_caps(view) 
    11060 File
    11061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11062 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11063 subdivision = settings.clipping_cap_subdivision) 
    11064 File
    11065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11066 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11067 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11068 File
    11069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11070 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11071 cm.set_geometry(varray, narray, tarray) 
    11072 File
    11073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11074 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11075 arv() 
    11076 File
    11077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11078 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11079 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11080 File
    11081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11082 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11083 s.vertex_colors = self.vertex_colors(report_stats) 
    11084 File
    11085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11086 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11087 values, outside = self.volume_values() 
    11088 File
    11089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11090 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11091 return self.offset_values(v, n, tf) 
    11092 File
    11093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11094 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11095 values, outside = self.vertex_values(v, xf) 
    11096 File
    11097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11098 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11099 out_of_bounds_list = True) 
    11100 File
    11101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11102 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11103 subregion, step) 
    11104 File
    11105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11106 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11107 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11108 File
    11109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11110 packages/chimerax/map/volume.py", line 1243, in
    11111 matrix_indices_to_xyz_transform 
    11112 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11113 File
    11114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11115 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11116 r = self.subregion(step, subregion) 
    11117 File
    11118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11119 packages/chimerax/map/volume.py", line 1558, in subregion 
    11120 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11121 AttributeError: 'NoneType' object has no attribute 'size' 
    11122  
    11123 AttributeError: 'NoneType' object has no attribute 'size' 
    11124  
    11125 File
    11126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11127 packages/chimerax/map/volume.py", line 1558, in subregion 
    11128 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11129  
    11130 See log for complete Python traceback. 
    11131  
    11132 Traceback (most recent call last): 
    11133 File
    11134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11135 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11136 drew = self.draw_new_frame() 
    11137 File
    11138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11139 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11140 surface.update_clip_caps(view) 
    11141 File
    11142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11143 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11144 subdivision = settings.clipping_cap_subdivision) 
    11145 File
    11146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11147 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11148 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11149 File
    11150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11151 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11152 cm.set_geometry(varray, narray, tarray) 
    11153 File
    11154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11155 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11156 arv() 
    11157 File
    11158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11159 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11160 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11161 File
    11162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11163 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11164 s.vertex_colors = self.vertex_colors(report_stats) 
    11165 File
    11166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11167 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11168 values, outside = self.volume_values() 
    11169 File
    11170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11171 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11172 return self.offset_values(v, n, tf) 
    11173 File
    11174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11175 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11176 values, outside = self.vertex_values(v, xf) 
    11177 File
    11178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11179 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11180 out_of_bounds_list = True) 
    11181 File
    11182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11183 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11184 subregion, step) 
    11185 File
    11186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11187 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11188 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11189 File
    11190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11191 packages/chimerax/map/volume.py", line 1243, in
    11192 matrix_indices_to_xyz_transform 
    11193 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11194 File
    11195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11196 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11197 r = self.subregion(step, subregion) 
    11198 File
    11199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11200 packages/chimerax/map/volume.py", line 1558, in subregion 
    11201 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11202 AttributeError: 'NoneType' object has no attribute 'size' 
    11203  
    11204 AttributeError: 'NoneType' object has no attribute 'size' 
    11205  
    11206 File
    11207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11208 packages/chimerax/map/volume.py", line 1558, in subregion 
    11209 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11210  
    11211 See log for complete Python traceback. 
    11212  
    11213 Traceback (most recent call last): 
    11214 File
    11215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11216 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11217 drew = self.draw_new_frame() 
    11218 File
    11219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11220 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11221 surface.update_clip_caps(view) 
    11222 File
    11223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11224 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11225 subdivision = settings.clipping_cap_subdivision) 
    11226 File
    11227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11228 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11229 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11230 File
    11231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11232 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11233 cm.set_geometry(varray, narray, tarray) 
    11234 File
    11235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11236 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11237 arv() 
    11238 File
    11239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11240 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11241 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11242 File
    11243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11244 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11245 s.vertex_colors = self.vertex_colors(report_stats) 
    11246 File
    11247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11248 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11249 values, outside = self.volume_values() 
    11250 File
    11251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11252 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11253 return self.offset_values(v, n, tf) 
    11254 File
    11255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11256 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11257 values, outside = self.vertex_values(v, xf) 
    11258 File
    11259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11260 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11261 out_of_bounds_list = True) 
    11262 File
    11263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11264 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11265 subregion, step) 
    11266 File
    11267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11268 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11269 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11270 File
    11271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11272 packages/chimerax/map/volume.py", line 1243, in
    11273 matrix_indices_to_xyz_transform 
    11274 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11275 File
    11276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11277 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11278 r = self.subregion(step, subregion) 
    11279 File
    11280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11281 packages/chimerax/map/volume.py", line 1558, in subregion 
    11282 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11283 AttributeError: 'NoneType' object has no attribute 'size' 
    11284  
    11285 AttributeError: 'NoneType' object has no attribute 'size' 
    11286  
    11287 File
    11288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11289 packages/chimerax/map/volume.py", line 1558, in subregion 
    11290 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11291  
    11292 See log for complete Python traceback. 
    11293  
    11294 Traceback (most recent call last): 
    11295 File
    11296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11297 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11298 drew = self.draw_new_frame() 
    11299 File
    11300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11301 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11302 surface.update_clip_caps(view) 
    11303 File
    11304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11305 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11306 subdivision = settings.clipping_cap_subdivision) 
    11307 File
    11308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11309 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11310 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11311 File
    11312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11313 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11314 cm.set_geometry(varray, narray, tarray) 
    11315 File
    11316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11317 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11318 arv() 
    11319 File
    11320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11321 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11322 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11323 File
    11324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11325 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11326 s.vertex_colors = self.vertex_colors(report_stats) 
    11327 File
    11328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11329 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11330 values, outside = self.volume_values() 
    11331 File
    11332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11333 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11334 return self.offset_values(v, n, tf) 
    11335 File
    11336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11337 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11338 values, outside = self.vertex_values(v, xf) 
    11339 File
    11340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11341 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11342 out_of_bounds_list = True) 
    11343 File
    11344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11345 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11346 subregion, step) 
    11347 File
    11348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11349 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11350 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11351 File
    11352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11353 packages/chimerax/map/volume.py", line 1243, in
    11354 matrix_indices_to_xyz_transform 
    11355 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11356 File
    11357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11358 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11359 r = self.subregion(step, subregion) 
    11360 File
    11361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11362 packages/chimerax/map/volume.py", line 1558, in subregion 
    11363 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11364 AttributeError: 'NoneType' object has no attribute 'size' 
    11365  
    11366 AttributeError: 'NoneType' object has no attribute 'size' 
    11367  
    11368 File
    11369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11370 packages/chimerax/map/volume.py", line 1558, in subregion 
    11371 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11372  
    11373 See log for complete Python traceback. 
    11374  
    11375 Traceback (most recent call last): 
    11376 File
    11377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11378 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11379 drew = self.draw_new_frame() 
    11380 File
    11381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11382 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11383 surface.update_clip_caps(view) 
    11384 File
    11385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11386 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11387 subdivision = settings.clipping_cap_subdivision) 
    11388 File
    11389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11390 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11391 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11392 File
    11393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11394 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11395 cm.set_geometry(varray, narray, tarray) 
    11396 File
    11397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11398 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11399 arv() 
    11400 File
    11401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11402 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11403 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11404 File
    11405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11406 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11407 s.vertex_colors = self.vertex_colors(report_stats) 
    11408 File
    11409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11410 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11411 values, outside = self.volume_values() 
    11412 File
    11413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11414 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11415 return self.offset_values(v, n, tf) 
    11416 File
    11417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11418 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11419 values, outside = self.vertex_values(v, xf) 
    11420 File
    11421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11422 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11423 out_of_bounds_list = True) 
    11424 File
    11425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11426 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11427 subregion, step) 
    11428 File
    11429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11430 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11431 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11432 File
    11433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11434 packages/chimerax/map/volume.py", line 1243, in
    11435 matrix_indices_to_xyz_transform 
    11436 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11437 File
    11438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11439 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11440 r = self.subregion(step, subregion) 
    11441 File
    11442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11443 packages/chimerax/map/volume.py", line 1558, in subregion 
    11444 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11445 AttributeError: 'NoneType' object has no attribute 'size' 
    11446  
    11447 AttributeError: 'NoneType' object has no attribute 'size' 
    11448  
    11449 File
    11450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11451 packages/chimerax/map/volume.py", line 1558, in subregion 
    11452 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11453  
    11454 See log for complete Python traceback. 
    11455  
    11456 Traceback (most recent call last): 
    11457 File
    11458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11459 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11460 drew = self.draw_new_frame() 
    11461 File
    11462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11463 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11464 surface.update_clip_caps(view) 
    11465 File
    11466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11467 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11468 subdivision = settings.clipping_cap_subdivision) 
    11469 File
    11470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11471 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11472 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11473 File
    11474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11475 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11476 cm.set_geometry(varray, narray, tarray) 
    11477 File
    11478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11479 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11480 arv() 
    11481 File
    11482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11483 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11484 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11485 File
    11486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11487 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11488 s.vertex_colors = self.vertex_colors(report_stats) 
    11489 File
    11490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11491 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11492 values, outside = self.volume_values() 
    11493 File
    11494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11495 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11496 return self.offset_values(v, n, tf) 
    11497 File
    11498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11499 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11500 values, outside = self.vertex_values(v, xf) 
    11501 File
    11502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11503 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11504 out_of_bounds_list = True) 
    11505 File
    11506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11507 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11508 subregion, step) 
    11509 File
    11510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11511 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11512 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11513 File
    11514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11515 packages/chimerax/map/volume.py", line 1243, in
    11516 matrix_indices_to_xyz_transform 
    11517 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11518 File
    11519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11520 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11521 r = self.subregion(step, subregion) 
    11522 File
    11523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11524 packages/chimerax/map/volume.py", line 1558, in subregion 
    11525 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11526 AttributeError: 'NoneType' object has no attribute 'size' 
    11527  
    11528 AttributeError: 'NoneType' object has no attribute 'size' 
    11529  
    11530 File
    11531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11532 packages/chimerax/map/volume.py", line 1558, in subregion 
    11533 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11534  
    11535 See log for complete Python traceback. 
    11536  
    11537 Traceback (most recent call last): 
    11538 File
    11539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11540 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11541 drew = self.draw_new_frame() 
    11542 File
    11543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11544 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11545 surface.update_clip_caps(view) 
    11546 File
    11547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11548 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11549 subdivision = settings.clipping_cap_subdivision) 
    11550 File
    11551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11552 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11553 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11554 File
    11555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11556 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11557 cm.set_geometry(varray, narray, tarray) 
    11558 File
    11559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11560 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11561 arv() 
    11562 File
    11563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11564 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11565 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11566 File
    11567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11568 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11569 s.vertex_colors = self.vertex_colors(report_stats) 
    11570 File
    11571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11572 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11573 values, outside = self.volume_values() 
    11574 File
    11575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11576 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11577 return self.offset_values(v, n, tf) 
    11578 File
    11579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11580 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11581 values, outside = self.vertex_values(v, xf) 
    11582 File
    11583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11584 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11585 out_of_bounds_list = True) 
    11586 File
    11587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11588 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11589 subregion, step) 
    11590 File
    11591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11592 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11593 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11594 File
    11595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11596 packages/chimerax/map/volume.py", line 1243, in
    11597 matrix_indices_to_xyz_transform 
    11598 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11599 File
    11600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11601 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11602 r = self.subregion(step, subregion) 
    11603 File
    11604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11605 packages/chimerax/map/volume.py", line 1558, in subregion 
    11606 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11607 AttributeError: 'NoneType' object has no attribute 'size' 
    11608  
    11609 AttributeError: 'NoneType' object has no attribute 'size' 
    11610  
    11611 File
    11612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11613 packages/chimerax/map/volume.py", line 1558, in subregion 
    11614 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11615  
    11616 See log for complete Python traceback. 
    11617  
    11618 Traceback (most recent call last): 
    11619 File
    11620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11621 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11622 drew = self.draw_new_frame() 
    11623 File
    11624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11625 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11626 surface.update_clip_caps(view) 
    11627 File
    11628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11629 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11630 subdivision = settings.clipping_cap_subdivision) 
    11631 File
    11632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11633 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11634 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11635 File
    11636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11637 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11638 cm.set_geometry(varray, narray, tarray) 
    11639 File
    11640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11641 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11642 arv() 
    11643 File
    11644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11645 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11646 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11647 File
    11648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11649 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11650 s.vertex_colors = self.vertex_colors(report_stats) 
    11651 File
    11652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11653 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11654 values, outside = self.volume_values() 
    11655 File
    11656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11657 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11658 return self.offset_values(v, n, tf) 
    11659 File
    11660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11661 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11662 values, outside = self.vertex_values(v, xf) 
    11663 File
    11664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11665 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11666 out_of_bounds_list = True) 
    11667 File
    11668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11669 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11670 subregion, step) 
    11671 File
    11672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11673 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11674 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11675 File
    11676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11677 packages/chimerax/map/volume.py", line 1243, in
    11678 matrix_indices_to_xyz_transform 
    11679 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11680 File
    11681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11682 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11683 r = self.subregion(step, subregion) 
    11684 File
    11685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11686 packages/chimerax/map/volume.py", line 1558, in subregion 
    11687 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11688 AttributeError: 'NoneType' object has no attribute 'size' 
    11689  
    11690 AttributeError: 'NoneType' object has no attribute 'size' 
    11691  
    11692 File
    11693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11694 packages/chimerax/map/volume.py", line 1558, in subregion 
    11695 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11696  
    11697 See log for complete Python traceback. 
    11698  
    11699 Traceback (most recent call last): 
    11700 File
    11701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11702 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11703 drew = self.draw_new_frame() 
    11704 File
    11705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11706 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11707 surface.update_clip_caps(view) 
    11708 File
    11709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11710 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11711 subdivision = settings.clipping_cap_subdivision) 
    11712 File
    11713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11714 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11715 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11716 File
    11717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11718 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11719 cm.set_geometry(varray, narray, tarray) 
    11720 File
    11721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11722 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11723 arv() 
    11724 File
    11725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11726 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11727 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11728 File
    11729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11730 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11731 s.vertex_colors = self.vertex_colors(report_stats) 
    11732 File
    11733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11734 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11735 values, outside = self.volume_values() 
    11736 File
    11737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11738 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11739 return self.offset_values(v, n, tf) 
    11740 File
    11741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11742 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11743 values, outside = self.vertex_values(v, xf) 
    11744 File
    11745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11746 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11747 out_of_bounds_list = True) 
    11748 File
    11749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11750 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11751 subregion, step) 
    11752 File
    11753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11754 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11755 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11756 File
    11757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11758 packages/chimerax/map/volume.py", line 1243, in
    11759 matrix_indices_to_xyz_transform 
    11760 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11761 File
    11762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11763 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11764 r = self.subregion(step, subregion) 
    11765 File
    11766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11767 packages/chimerax/map/volume.py", line 1558, in subregion 
    11768 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11769 AttributeError: 'NoneType' object has no attribute 'size' 
    11770  
    11771 AttributeError: 'NoneType' object has no attribute 'size' 
    11772  
    11773 File
    11774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11775 packages/chimerax/map/volume.py", line 1558, in subregion 
    11776 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11777  
    11778 See log for complete Python traceback. 
    11779  
    11780 Traceback (most recent call last): 
    11781 File
    11782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11783 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11784 drew = self.draw_new_frame() 
    11785 File
    11786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11787 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11788 surface.update_clip_caps(view) 
    11789 File
    11790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11791 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11792 subdivision = settings.clipping_cap_subdivision) 
    11793 File
    11794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11795 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11796 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11797 File
    11798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11799 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11800 cm.set_geometry(varray, narray, tarray) 
    11801 File
    11802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11803 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11804 arv() 
    11805 File
    11806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11807 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11808 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11809 File
    11810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11811 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11812 s.vertex_colors = self.vertex_colors(report_stats) 
    11813 File
    11814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11815 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11816 values, outside = self.volume_values() 
    11817 File
    11818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11819 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11820 return self.offset_values(v, n, tf) 
    11821 File
    11822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11823 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11824 values, outside = self.vertex_values(v, xf) 
    11825 File
    11826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11827 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11828 out_of_bounds_list = True) 
    11829 File
    11830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11831 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11832 subregion, step) 
    11833 File
    11834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11835 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11836 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11837 File
    11838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11839 packages/chimerax/map/volume.py", line 1243, in
    11840 matrix_indices_to_xyz_transform 
    11841 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11842 File
    11843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11844 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11845 r = self.subregion(step, subregion) 
    11846 File
    11847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11848 packages/chimerax/map/volume.py", line 1558, in subregion 
    11849 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11850 AttributeError: 'NoneType' object has no attribute 'size' 
    11851  
    11852 AttributeError: 'NoneType' object has no attribute 'size' 
    11853  
    11854 File
    11855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11856 packages/chimerax/map/volume.py", line 1558, in subregion 
    11857 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11858  
    11859 See log for complete Python traceback. 
    11860  
    11861 Traceback (most recent call last): 
    11862 File
    11863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11864 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11865 drew = self.draw_new_frame() 
    11866 File
    11867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11868 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11869 surface.update_clip_caps(view) 
    11870 File
    11871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11872 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11873 subdivision = settings.clipping_cap_subdivision) 
    11874 File
    11875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11876 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11877 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11878 File
    11879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11880 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11881 cm.set_geometry(varray, narray, tarray) 
    11882 File
    11883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11884 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11885 arv() 
    11886 File
    11887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11888 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11889 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11890 File
    11891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11892 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11893 s.vertex_colors = self.vertex_colors(report_stats) 
    11894 File
    11895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11896 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11897 values, outside = self.volume_values() 
    11898 File
    11899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11900 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11901 return self.offset_values(v, n, tf) 
    11902 File
    11903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11904 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11905 values, outside = self.vertex_values(v, xf) 
    11906 File
    11907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11908 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11909 out_of_bounds_list = True) 
    11910 File
    11911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11912 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11913 subregion, step) 
    11914 File
    11915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11916 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11917 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11918 File
    11919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11920 packages/chimerax/map/volume.py", line 1243, in
    11921 matrix_indices_to_xyz_transform 
    11922 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    11923 File
    11924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11925 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    11926 r = self.subregion(step, subregion) 
    11927 File
    11928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11929 packages/chimerax/map/volume.py", line 1558, in subregion 
    11930 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11931 AttributeError: 'NoneType' object has no attribute 'size' 
    11932  
    11933 AttributeError: 'NoneType' object has no attribute 'size' 
    11934  
    11935 File
    11936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11937 packages/chimerax/map/volume.py", line 1558, in subregion 
    11938 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    11939  
    11940 See log for complete Python traceback. 
    11941  
    11942 Traceback (most recent call last): 
    11943 File
    11944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11945 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    11946 drew = self.draw_new_frame() 
    11947 File
    11948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11949 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    11950 surface.update_clip_caps(view) 
    11951 File
    11952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11953 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    11954 subdivision = settings.clipping_cap_subdivision) 
    11955 File
    11956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11957 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    11958 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    11959 File
    11960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11961 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    11962 cm.set_geometry(varray, narray, tarray) 
    11963 File
    11964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11965 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    11966 arv() 
    11967 File
    11968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11969 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    11970 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    11971 File
    11972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11973 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    11974 s.vertex_colors = self.vertex_colors(report_stats) 
    11975 File
    11976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11977 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    11978 values, outside = self.volume_values() 
    11979 File
    11980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11981 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    11982 return self.offset_values(v, n, tf) 
    11983 File
    11984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11985 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    11986 values, outside = self.vertex_values(v, xf) 
    11987 File
    11988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11989 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    11990 out_of_bounds_list = True) 
    11991 File
    11992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11993 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    11994 subregion, step) 
    11995 File
    11996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    11997 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    11998 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    11999 File
    12000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12001 packages/chimerax/map/volume.py", line 1243, in
    12002 matrix_indices_to_xyz_transform 
    12003 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12004 File
    12005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12006 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12007 r = self.subregion(step, subregion) 
    12008 File
    12009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12010 packages/chimerax/map/volume.py", line 1558, in subregion 
    12011 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12012 AttributeError: 'NoneType' object has no attribute 'size' 
    12013  
    12014 AttributeError: 'NoneType' object has no attribute 'size' 
    12015  
    12016 File
    12017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12018 packages/chimerax/map/volume.py", line 1558, in subregion 
    12019 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12020  
    12021 See log for complete Python traceback. 
    12022  
    12023 Traceback (most recent call last): 
    12024 File
    12025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12026 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12027 drew = self.draw_new_frame() 
    12028 File
    12029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12030 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12031 surface.update_clip_caps(view) 
    12032 File
    12033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12034 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12035 subdivision = settings.clipping_cap_subdivision) 
    12036 File
    12037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12038 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12039 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12040 File
    12041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12042 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12043 cm.set_geometry(varray, narray, tarray) 
    12044 File
    12045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12046 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12047 arv() 
    12048 File
    12049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12050 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12051 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12052 File
    12053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12054 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12055 s.vertex_colors = self.vertex_colors(report_stats) 
    12056 File
    12057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12058 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12059 values, outside = self.volume_values() 
    12060 File
    12061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12062 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12063 return self.offset_values(v, n, tf) 
    12064 File
    12065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12066 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12067 values, outside = self.vertex_values(v, xf) 
    12068 File
    12069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12070 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12071 out_of_bounds_list = True) 
    12072 File
    12073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12074 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12075 subregion, step) 
    12076 File
    12077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12078 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12079 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12080 File
    12081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12082 packages/chimerax/map/volume.py", line 1243, in
    12083 matrix_indices_to_xyz_transform 
    12084 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12085 File
    12086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12087 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12088 r = self.subregion(step, subregion) 
    12089 File
    12090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12091 packages/chimerax/map/volume.py", line 1558, in subregion 
    12092 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12093 AttributeError: 'NoneType' object has no attribute 'size' 
    12094  
    12095 AttributeError: 'NoneType' object has no attribute 'size' 
    12096  
    12097 File
    12098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12099 packages/chimerax/map/volume.py", line 1558, in subregion 
    12100 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12101  
    12102 See log for complete Python traceback. 
    12103  
    12104 Traceback (most recent call last): 
    12105 File
    12106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12107 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12108 drew = self.draw_new_frame() 
    12109 File
    12110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12111 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12112 surface.update_clip_caps(view) 
    12113 File
    12114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12115 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12116 subdivision = settings.clipping_cap_subdivision) 
    12117 File
    12118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12119 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12120 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12121 File
    12122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12123 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12124 cm.set_geometry(varray, narray, tarray) 
    12125 File
    12126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12127 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12128 arv() 
    12129 File
    12130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12131 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12132 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12133 File
    12134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12135 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12136 s.vertex_colors = self.vertex_colors(report_stats) 
    12137 File
    12138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12139 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12140 values, outside = self.volume_values() 
    12141 File
    12142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12143 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12144 return self.offset_values(v, n, tf) 
    12145 File
    12146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12147 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12148 values, outside = self.vertex_values(v, xf) 
    12149 File
    12150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12151 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12152 out_of_bounds_list = True) 
    12153 File
    12154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12155 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12156 subregion, step) 
    12157 File
    12158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12159 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12160 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12161 File
    12162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12163 packages/chimerax/map/volume.py", line 1243, in
    12164 matrix_indices_to_xyz_transform 
    12165 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12166 File
    12167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12168 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12169 r = self.subregion(step, subregion) 
    12170 File
    12171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12172 packages/chimerax/map/volume.py", line 1558, in subregion 
    12173 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12174 AttributeError: 'NoneType' object has no attribute 'size' 
    12175  
    12176 AttributeError: 'NoneType' object has no attribute 'size' 
    12177  
    12178 File
    12179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12180 packages/chimerax/map/volume.py", line 1558, in subregion 
    12181 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12182  
    12183 See log for complete Python traceback. 
    12184  
    12185 Traceback (most recent call last): 
    12186 File
    12187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12188 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12189 drew = self.draw_new_frame() 
    12190 File
    12191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12192 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12193 surface.update_clip_caps(view) 
    12194 File
    12195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12196 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12197 subdivision = settings.clipping_cap_subdivision) 
    12198 File
    12199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12200 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12201 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12202 File
    12203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12204 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12205 cm.set_geometry(varray, narray, tarray) 
    12206 File
    12207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12208 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12209 arv() 
    12210 File
    12211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12212 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12213 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12214 File
    12215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12216 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12217 s.vertex_colors = self.vertex_colors(report_stats) 
    12218 File
    12219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12220 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12221 values, outside = self.volume_values() 
    12222 File
    12223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12224 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12225 return self.offset_values(v, n, tf) 
    12226 File
    12227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12228 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12229 values, outside = self.vertex_values(v, xf) 
    12230 File
    12231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12232 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12233 out_of_bounds_list = True) 
    12234 File
    12235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12236 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12237 subregion, step) 
    12238 File
    12239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12240 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12241 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12242 File
    12243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12244 packages/chimerax/map/volume.py", line 1243, in
    12245 matrix_indices_to_xyz_transform 
    12246 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12247 File
    12248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12249 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12250 r = self.subregion(step, subregion) 
    12251 File
    12252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12253 packages/chimerax/map/volume.py", line 1558, in subregion 
    12254 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12255 AttributeError: 'NoneType' object has no attribute 'size' 
    12256  
    12257 AttributeError: 'NoneType' object has no attribute 'size' 
    12258  
    12259 File
    12260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12261 packages/chimerax/map/volume.py", line 1558, in subregion 
    12262 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12263  
    12264 See log for complete Python traceback. 
    12265  
    12266 Traceback (most recent call last): 
    12267 File
    12268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12269 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12270 drew = self.draw_new_frame() 
    12271 File
    12272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12273 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12274 surface.update_clip_caps(view) 
    12275 File
    12276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12277 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12278 subdivision = settings.clipping_cap_subdivision) 
    12279 File
    12280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12281 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12282 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12283 File
    12284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12285 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12286 cm.set_geometry(varray, narray, tarray) 
    12287 File
    12288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12289 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12290 arv() 
    12291 File
    12292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12293 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12294 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12295 File
    12296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12297 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12298 s.vertex_colors = self.vertex_colors(report_stats) 
    12299 File
    12300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12301 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12302 values, outside = self.volume_values() 
    12303 File
    12304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12305 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12306 return self.offset_values(v, n, tf) 
    12307 File
    12308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12309 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12310 values, outside = self.vertex_values(v, xf) 
    12311 File
    12312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12313 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12314 out_of_bounds_list = True) 
    12315 File
    12316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12317 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12318 subregion, step) 
    12319 File
    12320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12321 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12322 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12323 File
    12324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12325 packages/chimerax/map/volume.py", line 1243, in
    12326 matrix_indices_to_xyz_transform 
    12327 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12328 File
    12329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12330 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12331 r = self.subregion(step, subregion) 
    12332 File
    12333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12334 packages/chimerax/map/volume.py", line 1558, in subregion 
    12335 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12336 AttributeError: 'NoneType' object has no attribute 'size' 
    12337  
    12338 AttributeError: 'NoneType' object has no attribute 'size' 
    12339  
    12340 File
    12341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12342 packages/chimerax/map/volume.py", line 1558, in subregion 
    12343 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12344  
    12345 See log for complete Python traceback. 
    12346  
    12347 Traceback (most recent call last): 
    12348 File
    12349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12350 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12351 drew = self.draw_new_frame() 
    12352 File
    12353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12354 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12355 surface.update_clip_caps(view) 
    12356 File
    12357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12358 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12359 subdivision = settings.clipping_cap_subdivision) 
    12360 File
    12361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12362 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12363 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12364 File
    12365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12366 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12367 cm.set_geometry(varray, narray, tarray) 
    12368 File
    12369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12370 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12371 arv() 
    12372 File
    12373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12374 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12375 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12376 File
    12377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12378 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12379 s.vertex_colors = self.vertex_colors(report_stats) 
    12380 File
    12381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12382 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12383 values, outside = self.volume_values() 
    12384 File
    12385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12386 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12387 return self.offset_values(v, n, tf) 
    12388 File
    12389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12390 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12391 values, outside = self.vertex_values(v, xf) 
    12392 File
    12393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12394 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12395 out_of_bounds_list = True) 
    12396 File
    12397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12398 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12399 subregion, step) 
    12400 File
    12401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12402 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12403 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12404 File
    12405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12406 packages/chimerax/map/volume.py", line 1243, in
    12407 matrix_indices_to_xyz_transform 
    12408 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12409 File
    12410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12411 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12412 r = self.subregion(step, subregion) 
    12413 File
    12414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12415 packages/chimerax/map/volume.py", line 1558, in subregion 
    12416 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12417 AttributeError: 'NoneType' object has no attribute 'size' 
    12418  
    12419 AttributeError: 'NoneType' object has no attribute 'size' 
    12420  
    12421 File
    12422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12423 packages/chimerax/map/volume.py", line 1558, in subregion 
    12424 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12425  
    12426 See log for complete Python traceback. 
    12427  
    12428 Traceback (most recent call last): 
    12429 File
    12430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12431 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12432 drew = self.draw_new_frame() 
    12433 File
    12434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12435 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12436 surface.update_clip_caps(view) 
    12437 File
    12438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12439 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12440 subdivision = settings.clipping_cap_subdivision) 
    12441 File
    12442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12443 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12444 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12445 File
    12446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12447 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12448 cm.set_geometry(varray, narray, tarray) 
    12449 File
    12450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12451 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12452 arv() 
    12453 File
    12454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12455 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12456 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12457 File
    12458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12459 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12460 s.vertex_colors = self.vertex_colors(report_stats) 
    12461 File
    12462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12463 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12464 values, outside = self.volume_values() 
    12465 File
    12466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12467 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12468 return self.offset_values(v, n, tf) 
    12469 File
    12470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12471 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12472 values, outside = self.vertex_values(v, xf) 
    12473 File
    12474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12475 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12476 out_of_bounds_list = True) 
    12477 File
    12478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12479 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12480 subregion, step) 
    12481 File
    12482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12483 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12484 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12485 File
    12486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12487 packages/chimerax/map/volume.py", line 1243, in
    12488 matrix_indices_to_xyz_transform 
    12489 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12490 File
    12491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12492 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12493 r = self.subregion(step, subregion) 
    12494 File
    12495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12496 packages/chimerax/map/volume.py", line 1558, in subregion 
    12497 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12498 AttributeError: 'NoneType' object has no attribute 'size' 
    12499  
    12500 AttributeError: 'NoneType' object has no attribute 'size' 
    12501  
    12502 File
    12503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12504 packages/chimerax/map/volume.py", line 1558, in subregion 
    12505 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12506  
    12507 See log for complete Python traceback. 
    12508  
    12509 Traceback (most recent call last): 
    12510 File
    12511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12512 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12513 drew = self.draw_new_frame() 
    12514 File
    12515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12516 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12517 surface.update_clip_caps(view) 
    12518 File
    12519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12520 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12521 subdivision = settings.clipping_cap_subdivision) 
    12522 File
    12523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12524 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12525 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12526 File
    12527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12528 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12529 cm.set_geometry(varray, narray, tarray) 
    12530 File
    12531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12532 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12533 arv() 
    12534 File
    12535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12536 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12537 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12538 File
    12539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12540 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12541 s.vertex_colors = self.vertex_colors(report_stats) 
    12542 File
    12543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12544 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12545 values, outside = self.volume_values() 
    12546 File
    12547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12548 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12549 return self.offset_values(v, n, tf) 
    12550 File
    12551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12552 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12553 values, outside = self.vertex_values(v, xf) 
    12554 File
    12555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12556 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12557 out_of_bounds_list = True) 
    12558 File
    12559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12560 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12561 subregion, step) 
    12562 File
    12563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12564 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12565 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12566 File
    12567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12568 packages/chimerax/map/volume.py", line 1243, in
    12569 matrix_indices_to_xyz_transform 
    12570 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12571 File
    12572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12573 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12574 r = self.subregion(step, subregion) 
    12575 File
    12576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12577 packages/chimerax/map/volume.py", line 1558, in subregion 
    12578 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12579 AttributeError: 'NoneType' object has no attribute 'size' 
    12580  
    12581 AttributeError: 'NoneType' object has no attribute 'size' 
    12582  
    12583 File
    12584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12585 packages/chimerax/map/volume.py", line 1558, in subregion 
    12586 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12587  
    12588 See log for complete Python traceback. 
    12589  
    12590 Traceback (most recent call last): 
    12591 File
    12592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12593 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12594 drew = self.draw_new_frame() 
    12595 File
    12596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12597 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12598 surface.update_clip_caps(view) 
    12599 File
    12600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12601 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12602 subdivision = settings.clipping_cap_subdivision) 
    12603 File
    12604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12605 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12606 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12607 File
    12608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12609 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12610 cm.set_geometry(varray, narray, tarray) 
    12611 File
    12612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12613 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12614 arv() 
    12615 File
    12616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12617 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12618 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12619 File
    12620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12621 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12622 s.vertex_colors = self.vertex_colors(report_stats) 
    12623 File
    12624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12625 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12626 values, outside = self.volume_values() 
    12627 File
    12628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12629 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12630 return self.offset_values(v, n, tf) 
    12631 File
    12632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12633 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12634 values, outside = self.vertex_values(v, xf) 
    12635 File
    12636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12637 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12638 out_of_bounds_list = True) 
    12639 File
    12640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12641 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12642 subregion, step) 
    12643 File
    12644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12645 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12646 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12647 File
    12648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12649 packages/chimerax/map/volume.py", line 1243, in
    12650 matrix_indices_to_xyz_transform 
    12651 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12652 File
    12653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12654 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12655 r = self.subregion(step, subregion) 
    12656 File
    12657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12658 packages/chimerax/map/volume.py", line 1558, in subregion 
    12659 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12660 AttributeError: 'NoneType' object has no attribute 'size' 
    12661  
    12662 AttributeError: 'NoneType' object has no attribute 'size' 
    12663  
    12664 File
    12665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12666 packages/chimerax/map/volume.py", line 1558, in subregion 
    12667 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12668  
    12669 See log for complete Python traceback. 
    12670  
    12671 Traceback (most recent call last): 
    12672 File
    12673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12674 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12675 drew = self.draw_new_frame() 
    12676 File
    12677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12678 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12679 surface.update_clip_caps(view) 
    12680 File
    12681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12682 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12683 subdivision = settings.clipping_cap_subdivision) 
    12684 File
    12685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12686 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12687 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12688 File
    12689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12690 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12691 cm.set_geometry(varray, narray, tarray) 
    12692 File
    12693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12694 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12695 arv() 
    12696 File
    12697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12698 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12699 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12700 File
    12701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12702 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12703 s.vertex_colors = self.vertex_colors(report_stats) 
    12704 File
    12705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12706 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12707 values, outside = self.volume_values() 
    12708 File
    12709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12710 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12711 return self.offset_values(v, n, tf) 
    12712 File
    12713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12714 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12715 values, outside = self.vertex_values(v, xf) 
    12716 File
    12717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12718 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12719 out_of_bounds_list = True) 
    12720 File
    12721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12722 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12723 subregion, step) 
    12724 File
    12725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12726 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12727 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12728 File
    12729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12730 packages/chimerax/map/volume.py", line 1243, in
    12731 matrix_indices_to_xyz_transform 
    12732 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12733 File
    12734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12735 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12736 r = self.subregion(step, subregion) 
    12737 File
    12738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12739 packages/chimerax/map/volume.py", line 1558, in subregion 
    12740 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12741 AttributeError: 'NoneType' object has no attribute 'size' 
    12742  
    12743 AttributeError: 'NoneType' object has no attribute 'size' 
    12744  
    12745 File
    12746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12747 packages/chimerax/map/volume.py", line 1558, in subregion 
    12748 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12749  
    12750 See log for complete Python traceback. 
    12751  
    12752 Traceback (most recent call last): 
    12753 File
    12754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12755 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12756 drew = self.draw_new_frame() 
    12757 File
    12758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12759 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12760 surface.update_clip_caps(view) 
    12761 File
    12762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12763 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12764 subdivision = settings.clipping_cap_subdivision) 
    12765 File
    12766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12767 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12768 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12769 File
    12770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12771 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12772 cm.set_geometry(varray, narray, tarray) 
    12773 File
    12774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12775 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12776 arv() 
    12777 File
    12778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12779 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12780 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12781 File
    12782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12783 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12784 s.vertex_colors = self.vertex_colors(report_stats) 
    12785 File
    12786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12787 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12788 values, outside = self.volume_values() 
    12789 File
    12790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12791 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12792 return self.offset_values(v, n, tf) 
    12793 File
    12794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12795 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12796 values, outside = self.vertex_values(v, xf) 
    12797 File
    12798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12799 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12800 out_of_bounds_list = True) 
    12801 File
    12802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12803 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12804 subregion, step) 
    12805 File
    12806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12807 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12808 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12809 File
    12810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12811 packages/chimerax/map/volume.py", line 1243, in
    12812 matrix_indices_to_xyz_transform 
    12813 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12814 File
    12815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12816 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12817 r = self.subregion(step, subregion) 
    12818 File
    12819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12820 packages/chimerax/map/volume.py", line 1558, in subregion 
    12821 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12822 AttributeError: 'NoneType' object has no attribute 'size' 
    12823  
    12824 AttributeError: 'NoneType' object has no attribute 'size' 
    12825  
    12826 File
    12827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12828 packages/chimerax/map/volume.py", line 1558, in subregion 
    12829 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12830  
    12831 See log for complete Python traceback. 
    12832  
    12833 Traceback (most recent call last): 
    12834 File
    12835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12836 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12837 drew = self.draw_new_frame() 
    12838 File
    12839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12840 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12841 surface.update_clip_caps(view) 
    12842 File
    12843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12844 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12845 subdivision = settings.clipping_cap_subdivision) 
    12846 File
    12847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12848 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12849 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12850 File
    12851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12852 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12853 cm.set_geometry(varray, narray, tarray) 
    12854 File
    12855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12856 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12857 arv() 
    12858 File
    12859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12860 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12861 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12862 File
    12863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12864 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12865 s.vertex_colors = self.vertex_colors(report_stats) 
    12866 File
    12867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12868 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12869 values, outside = self.volume_values() 
    12870 File
    12871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12872 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12873 return self.offset_values(v, n, tf) 
    12874 File
    12875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12876 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12877 values, outside = self.vertex_values(v, xf) 
    12878 File
    12879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12880 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12881 out_of_bounds_list = True) 
    12882 File
    12883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12884 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12885 subregion, step) 
    12886 File
    12887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12888 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12889 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12890 File
    12891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12892 packages/chimerax/map/volume.py", line 1243, in
    12893 matrix_indices_to_xyz_transform 
    12894 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12895 File
    12896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12897 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12898 r = self.subregion(step, subregion) 
    12899 File
    12900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12901 packages/chimerax/map/volume.py", line 1558, in subregion 
    12902 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12903 AttributeError: 'NoneType' object has no attribute 'size' 
    12904  
    12905 AttributeError: 'NoneType' object has no attribute 'size' 
    12906  
    12907 File
    12908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12909 packages/chimerax/map/volume.py", line 1558, in subregion 
    12910 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12911  
    12912 See log for complete Python traceback. 
    12913  
    12914 Traceback (most recent call last): 
    12915 File
    12916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12917 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12918 drew = self.draw_new_frame() 
    12919 File
    12920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12921 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    12922 surface.update_clip_caps(view) 
    12923 File
    12924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12925 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    12926 subdivision = settings.clipping_cap_subdivision) 
    12927 File
    12928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12929 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    12930 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    12931 File
    12932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12933 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    12934 cm.set_geometry(varray, narray, tarray) 
    12935 File
    12936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12937 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    12938 arv() 
    12939 File
    12940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12941 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    12942 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    12943 File
    12944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12945 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    12946 s.vertex_colors = self.vertex_colors(report_stats) 
    12947 File
    12948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12949 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    12950 values, outside = self.volume_values() 
    12951 File
    12952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12953 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    12954 return self.offset_values(v, n, tf) 
    12955 File
    12956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12957 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    12958 values, outside = self.vertex_values(v, xf) 
    12959 File
    12960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12961 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    12962 out_of_bounds_list = True) 
    12963 File
    12964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12965 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    12966 subregion, step) 
    12967 File
    12968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12969 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    12970 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    12971 File
    12972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12973 packages/chimerax/map/volume.py", line 1243, in
    12974 matrix_indices_to_xyz_transform 
    12975 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    12976 File
    12977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12978 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    12979 r = self.subregion(step, subregion) 
    12980 File
    12981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12982 packages/chimerax/map/volume.py", line 1558, in subregion 
    12983 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12984 AttributeError: 'NoneType' object has no attribute 'size' 
    12985  
    12986 AttributeError: 'NoneType' object has no attribute 'size' 
    12987  
    12988 File
    12989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12990 packages/chimerax/map/volume.py", line 1558, in subregion 
    12991 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    12992  
    12993 See log for complete Python traceback. 
    12994  
    12995 Traceback (most recent call last): 
    12996 File
    12997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    12998 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    12999 drew = self.draw_new_frame() 
    13000 File
    13001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13002 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13003 surface.update_clip_caps(view) 
    13004 File
    13005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13006 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13007 subdivision = settings.clipping_cap_subdivision) 
    13008 File
    13009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13010 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13011 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13012 File
    13013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13014 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13015 cm.set_geometry(varray, narray, tarray) 
    13016 File
    13017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13018 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13019 arv() 
    13020 File
    13021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13022 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13023 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13024 File
    13025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13026 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13027 s.vertex_colors = self.vertex_colors(report_stats) 
    13028 File
    13029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13030 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13031 values, outside = self.volume_values() 
    13032 File
    13033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13034 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13035 return self.offset_values(v, n, tf) 
    13036 File
    13037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13038 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13039 values, outside = self.vertex_values(v, xf) 
    13040 File
    13041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13042 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13043 out_of_bounds_list = True) 
    13044 File
    13045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13046 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13047 subregion, step) 
    13048 File
    13049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13050 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13051 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13052 File
    13053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13054 packages/chimerax/map/volume.py", line 1243, in
    13055 matrix_indices_to_xyz_transform 
    13056 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13057 File
    13058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13059 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13060 r = self.subregion(step, subregion) 
    13061 File
    13062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13063 packages/chimerax/map/volume.py", line 1558, in subregion 
    13064 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13065 AttributeError: 'NoneType' object has no attribute 'size' 
    13066  
    13067 AttributeError: 'NoneType' object has no attribute 'size' 
    13068  
    13069 File
    13070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13071 packages/chimerax/map/volume.py", line 1558, in subregion 
    13072 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13073  
    13074 See log for complete Python traceback. 
    13075  
    13076 Traceback (most recent call last): 
    13077 File
    13078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13079 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13080 drew = self.draw_new_frame() 
    13081 File
    13082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13083 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13084 surface.update_clip_caps(view) 
    13085 File
    13086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13087 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13088 subdivision = settings.clipping_cap_subdivision) 
    13089 File
    13090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13091 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13092 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13093 File
    13094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13095 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13096 cm.set_geometry(varray, narray, tarray) 
    13097 File
    13098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13099 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13100 arv() 
    13101 File
    13102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13103 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13104 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13105 File
    13106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13107 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13108 s.vertex_colors = self.vertex_colors(report_stats) 
    13109 File
    13110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13111 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13112 values, outside = self.volume_values() 
    13113 File
    13114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13115 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13116 return self.offset_values(v, n, tf) 
    13117 File
    13118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13119 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13120 values, outside = self.vertex_values(v, xf) 
    13121 File
    13122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13123 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13124 out_of_bounds_list = True) 
    13125 File
    13126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13127 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13128 subregion, step) 
    13129 File
    13130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13131 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13132 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13133 File
    13134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13135 packages/chimerax/map/volume.py", line 1243, in
    13136 matrix_indices_to_xyz_transform 
    13137 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13138 File
    13139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13140 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13141 r = self.subregion(step, subregion) 
    13142 File
    13143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13144 packages/chimerax/map/volume.py", line 1558, in subregion 
    13145 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13146 AttributeError: 'NoneType' object has no attribute 'size' 
    13147  
    13148 AttributeError: 'NoneType' object has no attribute 'size' 
    13149  
    13150 File
    13151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13152 packages/chimerax/map/volume.py", line 1558, in subregion 
    13153 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13154  
    13155 See log for complete Python traceback. 
    13156  
    13157 Traceback (most recent call last): 
    13158 File
    13159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13160 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13161 drew = self.draw_new_frame() 
    13162 File
    13163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13164 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13165 surface.update_clip_caps(view) 
    13166 File
    13167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13168 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13169 subdivision = settings.clipping_cap_subdivision) 
    13170 File
    13171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13172 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13173 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13174 File
    13175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13176 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13177 cm.set_geometry(varray, narray, tarray) 
    13178 File
    13179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13180 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13181 arv() 
    13182 File
    13183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13184 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13185 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13186 File
    13187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13188 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13189 s.vertex_colors = self.vertex_colors(report_stats) 
    13190 File
    13191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13192 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13193 values, outside = self.volume_values() 
    13194 File
    13195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13196 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13197 return self.offset_values(v, n, tf) 
    13198 File
    13199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13200 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13201 values, outside = self.vertex_values(v, xf) 
    13202 File
    13203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13204 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13205 out_of_bounds_list = True) 
    13206 File
    13207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13208 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13209 subregion, step) 
    13210 File
    13211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13212 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13213 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13214 File
    13215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13216 packages/chimerax/map/volume.py", line 1243, in
    13217 matrix_indices_to_xyz_transform 
    13218 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13219 File
    13220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13221 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13222 r = self.subregion(step, subregion) 
    13223 File
    13224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13225 packages/chimerax/map/volume.py", line 1558, in subregion 
    13226 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13227 AttributeError: 'NoneType' object has no attribute 'size' 
    13228  
    13229 AttributeError: 'NoneType' object has no attribute 'size' 
    13230  
    13231 File
    13232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13233 packages/chimerax/map/volume.py", line 1558, in subregion 
    13234 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13235  
    13236 See log for complete Python traceback. 
    13237  
    13238 Traceback (most recent call last): 
    13239 File
    13240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13241 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13242 drew = self.draw_new_frame() 
    13243 File
    13244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13245 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13246 surface.update_clip_caps(view) 
    13247 File
    13248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13249 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13250 subdivision = settings.clipping_cap_subdivision) 
    13251 File
    13252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13253 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13254 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13255 File
    13256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13257 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13258 cm.set_geometry(varray, narray, tarray) 
    13259 File
    13260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13261 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13262 arv() 
    13263 File
    13264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13265 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13266 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13267 File
    13268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13269 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13270 s.vertex_colors = self.vertex_colors(report_stats) 
    13271 File
    13272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13273 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13274 values, outside = self.volume_values() 
    13275 File
    13276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13277 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13278 return self.offset_values(v, n, tf) 
    13279 File
    13280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13281 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13282 values, outside = self.vertex_values(v, xf) 
    13283 File
    13284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13285 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13286 out_of_bounds_list = True) 
    13287 File
    13288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13289 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13290 subregion, step) 
    13291 File
    13292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13293 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13294 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13295 File
    13296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13297 packages/chimerax/map/volume.py", line 1243, in
    13298 matrix_indices_to_xyz_transform 
    13299 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13300 File
    13301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13302 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13303 r = self.subregion(step, subregion) 
    13304 File
    13305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13306 packages/chimerax/map/volume.py", line 1558, in subregion 
    13307 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13308 AttributeError: 'NoneType' object has no attribute 'size' 
    13309  
    13310 AttributeError: 'NoneType' object has no attribute 'size' 
    13311  
    13312 File
    13313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13314 packages/chimerax/map/volume.py", line 1558, in subregion 
    13315 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13316  
    13317 See log for complete Python traceback. 
    13318  
    13319 Traceback (most recent call last): 
    13320 File
    13321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13322 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13323 drew = self.draw_new_frame() 
    13324 File
    13325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13326 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13327 surface.update_clip_caps(view) 
    13328 File
    13329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13330 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13331 subdivision = settings.clipping_cap_subdivision) 
    13332 File
    13333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13334 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13335 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13336 File
    13337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13338 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13339 cm.set_geometry(varray, narray, tarray) 
    13340 File
    13341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13342 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13343 arv() 
    13344 File
    13345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13346 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13347 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13348 File
    13349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13350 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13351 s.vertex_colors = self.vertex_colors(report_stats) 
    13352 File
    13353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13354 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13355 values, outside = self.volume_values() 
    13356 File
    13357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13358 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13359 return self.offset_values(v, n, tf) 
    13360 File
    13361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13362 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13363 values, outside = self.vertex_values(v, xf) 
    13364 File
    13365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13366 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13367 out_of_bounds_list = True) 
    13368 File
    13369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13370 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13371 subregion, step) 
    13372 File
    13373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13374 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13375 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13376 File
    13377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13378 packages/chimerax/map/volume.py", line 1243, in
    13379 matrix_indices_to_xyz_transform 
    13380 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13381 File
    13382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13383 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13384 r = self.subregion(step, subregion) 
    13385 File
    13386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13387 packages/chimerax/map/volume.py", line 1558, in subregion 
    13388 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13389 AttributeError: 'NoneType' object has no attribute 'size' 
    13390  
    13391 AttributeError: 'NoneType' object has no attribute 'size' 
    13392  
    13393 File
    13394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13395 packages/chimerax/map/volume.py", line 1558, in subregion 
    13396 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13397  
    13398 See log for complete Python traceback. 
    13399  
    13400 Traceback (most recent call last): 
    13401 File
    13402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13403 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13404 drew = self.draw_new_frame() 
    13405 File
    13406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13407 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13408 surface.update_clip_caps(view) 
    13409 File
    13410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13411 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13412 subdivision = settings.clipping_cap_subdivision) 
    13413 File
    13414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13415 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13416 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13417 File
    13418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13419 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13420 cm.set_geometry(varray, narray, tarray) 
    13421 File
    13422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13423 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13424 arv() 
    13425 File
    13426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13427 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13428 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13429 File
    13430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13431 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13432 s.vertex_colors = self.vertex_colors(report_stats) 
    13433 File
    13434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13435 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13436 values, outside = self.volume_values() 
    13437 File
    13438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13439 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13440 return self.offset_values(v, n, tf) 
    13441 File
    13442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13443 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13444 values, outside = self.vertex_values(v, xf) 
    13445 File
    13446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13447 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13448 out_of_bounds_list = True) 
    13449 File
    13450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13451 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13452 subregion, step) 
    13453 File
    13454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13455 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13456 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13457 File
    13458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13459 packages/chimerax/map/volume.py", line 1243, in
    13460 matrix_indices_to_xyz_transform 
    13461 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13462 File
    13463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13464 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13465 r = self.subregion(step, subregion) 
    13466 File
    13467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13468 packages/chimerax/map/volume.py", line 1558, in subregion 
    13469 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13470 AttributeError: 'NoneType' object has no attribute 'size' 
    13471  
    13472 AttributeError: 'NoneType' object has no attribute 'size' 
    13473  
    13474 File
    13475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13476 packages/chimerax/map/volume.py", line 1558, in subregion 
    13477 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13478  
    13479 See log for complete Python traceback. 
    13480  
    13481 Traceback (most recent call last): 
    13482 File
    13483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13484 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13485 drew = self.draw_new_frame() 
    13486 File
    13487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13488 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13489 surface.update_clip_caps(view) 
    13490 File
    13491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13492 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13493 subdivision = settings.clipping_cap_subdivision) 
    13494 File
    13495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13496 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13497 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13498 File
    13499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13500 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13501 cm.set_geometry(varray, narray, tarray) 
    13502 File
    13503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13504 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13505 arv() 
    13506 File
    13507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13508 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13509 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13510 File
    13511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13512 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13513 s.vertex_colors = self.vertex_colors(report_stats) 
    13514 File
    13515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13516 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13517 values, outside = self.volume_values() 
    13518 File
    13519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13520 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13521 return self.offset_values(v, n, tf) 
    13522 File
    13523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13524 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13525 values, outside = self.vertex_values(v, xf) 
    13526 File
    13527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13528 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13529 out_of_bounds_list = True) 
    13530 File
    13531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13532 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13533 subregion, step) 
    13534 File
    13535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13536 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13537 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13538 File
    13539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13540 packages/chimerax/map/volume.py", line 1243, in
    13541 matrix_indices_to_xyz_transform 
    13542 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13543 File
    13544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13545 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13546 r = self.subregion(step, subregion) 
    13547 File
    13548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13549 packages/chimerax/map/volume.py", line 1558, in subregion 
    13550 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13551 AttributeError: 'NoneType' object has no attribute 'size' 
    13552  
    13553 AttributeError: 'NoneType' object has no attribute 'size' 
    13554  
    13555 File
    13556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13557 packages/chimerax/map/volume.py", line 1558, in subregion 
    13558 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13559  
    13560 See log for complete Python traceback. 
    13561  
    13562 Traceback (most recent call last): 
    13563 File
    13564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13565 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13566 drew = self.draw_new_frame() 
    13567 File
    13568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13569 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13570 surface.update_clip_caps(view) 
    13571 File
    13572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13573 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13574 subdivision = settings.clipping_cap_subdivision) 
    13575 File
    13576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13577 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13578 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13579 File
    13580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13581 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13582 cm.set_geometry(varray, narray, tarray) 
    13583 File
    13584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13585 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13586 arv() 
    13587 File
    13588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13589 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13590 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13591 File
    13592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13593 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13594 s.vertex_colors = self.vertex_colors(report_stats) 
    13595 File
    13596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13597 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13598 values, outside = self.volume_values() 
    13599 File
    13600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13601 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13602 return self.offset_values(v, n, tf) 
    13603 File
    13604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13605 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13606 values, outside = self.vertex_values(v, xf) 
    13607 File
    13608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13609 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13610 out_of_bounds_list = True) 
    13611 File
    13612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13613 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13614 subregion, step) 
    13615 File
    13616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13617 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13618 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13619 File
    13620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13621 packages/chimerax/map/volume.py", line 1243, in
    13622 matrix_indices_to_xyz_transform 
    13623 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13624 File
    13625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13626 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13627 r = self.subregion(step, subregion) 
    13628 File
    13629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13630 packages/chimerax/map/volume.py", line 1558, in subregion 
    13631 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13632 AttributeError: 'NoneType' object has no attribute 'size' 
    13633  
    13634 AttributeError: 'NoneType' object has no attribute 'size' 
    13635  
    13636 File
    13637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13638 packages/chimerax/map/volume.py", line 1558, in subregion 
    13639 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13640  
    13641 See log for complete Python traceback. 
    13642  
    13643 Traceback (most recent call last): 
    13644 File
    13645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13646 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13647 drew = self.draw_new_frame() 
    13648 File
    13649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13650 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13651 surface.update_clip_caps(view) 
    13652 File
    13653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13654 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13655 subdivision = settings.clipping_cap_subdivision) 
    13656 File
    13657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13658 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13659 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13660 File
    13661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13662 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13663 cm.set_geometry(varray, narray, tarray) 
    13664 File
    13665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13666 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13667 arv() 
    13668 File
    13669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13670 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13671 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13672 File
    13673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13674 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13675 s.vertex_colors = self.vertex_colors(report_stats) 
    13676 File
    13677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13678 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13679 values, outside = self.volume_values() 
    13680 File
    13681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13682 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13683 return self.offset_values(v, n, tf) 
    13684 File
    13685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13686 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13687 values, outside = self.vertex_values(v, xf) 
    13688 File
    13689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13690 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13691 out_of_bounds_list = True) 
    13692 File
    13693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13694 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13695 subregion, step) 
    13696 File
    13697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13698 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13699 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13700 File
    13701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13702 packages/chimerax/map/volume.py", line 1243, in
    13703 matrix_indices_to_xyz_transform 
    13704 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13705 File
    13706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13707 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13708 r = self.subregion(step, subregion) 
    13709 File
    13710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13711 packages/chimerax/map/volume.py", line 1558, in subregion 
    13712 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13713 AttributeError: 'NoneType' object has no attribute 'size' 
    13714  
    13715 AttributeError: 'NoneType' object has no attribute 'size' 
    13716  
    13717 File
    13718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13719 packages/chimerax/map/volume.py", line 1558, in subregion 
    13720 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13721  
    13722 See log for complete Python traceback. 
    13723  
    13724 Traceback (most recent call last): 
    13725 File
    13726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13727 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13728 drew = self.draw_new_frame() 
    13729 File
    13730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13731 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13732 surface.update_clip_caps(view) 
    13733 File
    13734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13735 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13736 subdivision = settings.clipping_cap_subdivision) 
    13737 File
    13738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13739 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13740 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13741 File
    13742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13743 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13744 cm.set_geometry(varray, narray, tarray) 
    13745 File
    13746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13747 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13748 arv() 
    13749 File
    13750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13751 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13752 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13753 File
    13754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13755 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13756 s.vertex_colors = self.vertex_colors(report_stats) 
    13757 File
    13758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13759 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13760 values, outside = self.volume_values() 
    13761 File
    13762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13763 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13764 return self.offset_values(v, n, tf) 
    13765 File
    13766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13767 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13768 values, outside = self.vertex_values(v, xf) 
    13769 File
    13770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13771 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13772 out_of_bounds_list = True) 
    13773 File
    13774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13775 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13776 subregion, step) 
    13777 File
    13778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13779 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13780 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13781 File
    13782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13783 packages/chimerax/map/volume.py", line 1243, in
    13784 matrix_indices_to_xyz_transform 
    13785 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13786 File
    13787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13788 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13789 r = self.subregion(step, subregion) 
    13790 File
    13791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13792 packages/chimerax/map/volume.py", line 1558, in subregion 
    13793 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13794 AttributeError: 'NoneType' object has no attribute 'size' 
    13795  
    13796 AttributeError: 'NoneType' object has no attribute 'size' 
    13797  
    13798 File
    13799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13800 packages/chimerax/map/volume.py", line 1558, in subregion 
    13801 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13802  
    13803 See log for complete Python traceback. 
    13804  
    13805 Traceback (most recent call last): 
    13806 File
    13807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13808 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13809 drew = self.draw_new_frame() 
    13810 File
    13811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13812 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13813 surface.update_clip_caps(view) 
    13814 File
    13815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13816 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13817 subdivision = settings.clipping_cap_subdivision) 
    13818 File
    13819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13820 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13821 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13822 File
    13823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13824 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13825 cm.set_geometry(varray, narray, tarray) 
    13826 File
    13827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13828 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13829 arv() 
    13830 File
    13831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13832 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13833 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13834 File
    13835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13836 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13837 s.vertex_colors = self.vertex_colors(report_stats) 
    13838 File
    13839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13840 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13841 values, outside = self.volume_values() 
    13842 File
    13843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13844 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13845 return self.offset_values(v, n, tf) 
    13846 File
    13847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13848 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13849 values, outside = self.vertex_values(v, xf) 
    13850 File
    13851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13852 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13853 out_of_bounds_list = True) 
    13854 File
    13855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13856 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13857 subregion, step) 
    13858 File
    13859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13860 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13861 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13862 File
    13863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13864 packages/chimerax/map/volume.py", line 1243, in
    13865 matrix_indices_to_xyz_transform 
    13866 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13867 File
    13868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13869 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13870 r = self.subregion(step, subregion) 
    13871 File
    13872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13873 packages/chimerax/map/volume.py", line 1558, in subregion 
    13874 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13875 AttributeError: 'NoneType' object has no attribute 'size' 
    13876  
    13877 AttributeError: 'NoneType' object has no attribute 'size' 
    13878  
    13879 File
    13880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13881 packages/chimerax/map/volume.py", line 1558, in subregion 
    13882 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13883  
    13884 See log for complete Python traceback. 
    13885  
    13886 Traceback (most recent call last): 
    13887 File
    13888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13889 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13890 drew = self.draw_new_frame() 
    13891 File
    13892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13893 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13894 surface.update_clip_caps(view) 
    13895 File
    13896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13897 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13898 subdivision = settings.clipping_cap_subdivision) 
    13899 File
    13900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13901 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13902 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13903 File
    13904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13905 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13906 cm.set_geometry(varray, narray, tarray) 
    13907 File
    13908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13909 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13910 arv() 
    13911 File
    13912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13913 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13914 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13915 File
    13916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13917 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13918 s.vertex_colors = self.vertex_colors(report_stats) 
    13919 File
    13920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13921 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    13922 values, outside = self.volume_values() 
    13923 File
    13924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13925 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    13926 return self.offset_values(v, n, tf) 
    13927 File
    13928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13929 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    13930 values, outside = self.vertex_values(v, xf) 
    13931 File
    13932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13933 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    13934 out_of_bounds_list = True) 
    13935 File
    13936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13937 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    13938 subregion, step) 
    13939 File
    13940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13941 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    13942 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    13943 File
    13944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13945 packages/chimerax/map/volume.py", line 1243, in
    13946 matrix_indices_to_xyz_transform 
    13947 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    13948 File
    13949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13950 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    13951 r = self.subregion(step, subregion) 
    13952 File
    13953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13954 packages/chimerax/map/volume.py", line 1558, in subregion 
    13955 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13956 AttributeError: 'NoneType' object has no attribute 'size' 
    13957  
    13958 AttributeError: 'NoneType' object has no attribute 'size' 
    13959  
    13960 File
    13961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13962 packages/chimerax/map/volume.py", line 1558, in subregion 
    13963 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    13964  
    13965 See log for complete Python traceback. 
    13966  
    13967 Traceback (most recent call last): 
    13968 File
    13969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13970 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    13971 drew = self.draw_new_frame() 
    13972 File
    13973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13974 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    13975 surface.update_clip_caps(view) 
    13976 File
    13977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13978 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    13979 subdivision = settings.clipping_cap_subdivision) 
    13980 File
    13981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13982 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    13983 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    13984 File
    13985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13986 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    13987 cm.set_geometry(varray, narray, tarray) 
    13988 File
    13989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13990 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    13991 arv() 
    13992 File
    13993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13994 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    13995 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    13996 File
    13997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    13998 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    13999 s.vertex_colors = self.vertex_colors(report_stats) 
    14000 File
    14001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14002 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14003 values, outside = self.volume_values() 
    14004 File
    14005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14006 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14007 return self.offset_values(v, n, tf) 
    14008 File
    14009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14010 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14011 values, outside = self.vertex_values(v, xf) 
    14012 File
    14013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14014 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14015 out_of_bounds_list = True) 
    14016 File
    14017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14018 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14019 subregion, step) 
    14020 File
    14021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14022 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14023 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14024 File
    14025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14026 packages/chimerax/map/volume.py", line 1243, in
    14027 matrix_indices_to_xyz_transform 
    14028 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14029 File
    14030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14031 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14032 r = self.subregion(step, subregion) 
    14033 File
    14034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14035 packages/chimerax/map/volume.py", line 1558, in subregion 
    14036 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14037 AttributeError: 'NoneType' object has no attribute 'size' 
    14038  
    14039 AttributeError: 'NoneType' object has no attribute 'size' 
    14040  
    14041 File
    14042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14043 packages/chimerax/map/volume.py", line 1558, in subregion 
    14044 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14045  
    14046 See log for complete Python traceback. 
    14047  
    14048 Traceback (most recent call last): 
    14049 File
    14050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14051 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14052 drew = self.draw_new_frame() 
    14053 File
    14054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14055 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14056 surface.update_clip_caps(view) 
    14057 File
    14058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14059 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14060 subdivision = settings.clipping_cap_subdivision) 
    14061 File
    14062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14063 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14064 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14065 File
    14066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14067 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14068 cm.set_geometry(varray, narray, tarray) 
    14069 File
    14070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14071 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14072 arv() 
    14073 File
    14074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14075 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14076 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14077 File
    14078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14079 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14080 s.vertex_colors = self.vertex_colors(report_stats) 
    14081 File
    14082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14083 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14084 values, outside = self.volume_values() 
    14085 File
    14086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14087 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14088 return self.offset_values(v, n, tf) 
    14089 File
    14090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14091 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14092 values, outside = self.vertex_values(v, xf) 
    14093 File
    14094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14095 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14096 out_of_bounds_list = True) 
    14097 File
    14098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14099 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14100 subregion, step) 
    14101 File
    14102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14103 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14104 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14105 File
    14106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14107 packages/chimerax/map/volume.py", line 1243, in
    14108 matrix_indices_to_xyz_transform 
    14109 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14110 File
    14111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14112 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14113 r = self.subregion(step, subregion) 
    14114 File
    14115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14116 packages/chimerax/map/volume.py", line 1558, in subregion 
    14117 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14118 AttributeError: 'NoneType' object has no attribute 'size' 
    14119  
    14120 AttributeError: 'NoneType' object has no attribute 'size' 
    14121  
    14122 File
    14123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14124 packages/chimerax/map/volume.py", line 1558, in subregion 
    14125 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14126  
    14127 See log for complete Python traceback. 
    14128  
    14129 Traceback (most recent call last): 
    14130 File
    14131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14132 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14133 drew = self.draw_new_frame() 
    14134 File
    14135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14136 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14137 surface.update_clip_caps(view) 
    14138 File
    14139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14140 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14141 subdivision = settings.clipping_cap_subdivision) 
    14142 File
    14143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14144 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14145 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14146 File
    14147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14148 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14149 cm.set_geometry(varray, narray, tarray) 
    14150 File
    14151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14152 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14153 arv() 
    14154 File
    14155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14156 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14157 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14158 File
    14159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14160 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14161 s.vertex_colors = self.vertex_colors(report_stats) 
    14162 File
    14163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14164 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14165 values, outside = self.volume_values() 
    14166 File
    14167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14168 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14169 return self.offset_values(v, n, tf) 
    14170 File
    14171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14172 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14173 values, outside = self.vertex_values(v, xf) 
    14174 File
    14175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14176 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14177 out_of_bounds_list = True) 
    14178 File
    14179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14180 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14181 subregion, step) 
    14182 File
    14183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14184 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14185 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14186 File
    14187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14188 packages/chimerax/map/volume.py", line 1243, in
    14189 matrix_indices_to_xyz_transform 
    14190 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14191 File
    14192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14193 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14194 r = self.subregion(step, subregion) 
    14195 File
    14196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14197 packages/chimerax/map/volume.py", line 1558, in subregion 
    14198 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14199 AttributeError: 'NoneType' object has no attribute 'size' 
    14200  
    14201 AttributeError: 'NoneType' object has no attribute 'size' 
    14202  
    14203 File
    14204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14205 packages/chimerax/map/volume.py", line 1558, in subregion 
    14206 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14207  
    14208 See log for complete Python traceback. 
    14209  
    14210 Traceback (most recent call last): 
    14211 File
    14212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14213 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14214 drew = self.draw_new_frame() 
    14215 File
    14216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14217 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14218 surface.update_clip_caps(view) 
    14219 File
    14220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14221 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14222 subdivision = settings.clipping_cap_subdivision) 
    14223 File
    14224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14225 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14226 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14227 File
    14228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14229 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14230 cm.set_geometry(varray, narray, tarray) 
    14231 File
    14232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14233 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14234 arv() 
    14235 File
    14236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14237 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14238 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14239 File
    14240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14241 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14242 s.vertex_colors = self.vertex_colors(report_stats) 
    14243 File
    14244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14245 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14246 values, outside = self.volume_values() 
    14247 File
    14248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14249 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14250 return self.offset_values(v, n, tf) 
    14251 File
    14252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14253 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14254 values, outside = self.vertex_values(v, xf) 
    14255 File
    14256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14257 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14258 out_of_bounds_list = True) 
    14259 File
    14260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14261 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14262 subregion, step) 
    14263 File
    14264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14265 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14266 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14267 File
    14268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14269 packages/chimerax/map/volume.py", line 1243, in
    14270 matrix_indices_to_xyz_transform 
    14271 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14272 File
    14273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14274 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14275 r = self.subregion(step, subregion) 
    14276 File
    14277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14278 packages/chimerax/map/volume.py", line 1558, in subregion 
    14279 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14280 AttributeError: 'NoneType' object has no attribute 'size' 
    14281  
    14282 AttributeError: 'NoneType' object has no attribute 'size' 
    14283  
    14284 File
    14285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14286 packages/chimerax/map/volume.py", line 1558, in subregion 
    14287 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14288  
    14289 See log for complete Python traceback. 
    14290  
    14291 Traceback (most recent call last): 
    14292 File
    14293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14294 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14295 drew = self.draw_new_frame() 
    14296 File
    14297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14298 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14299 surface.update_clip_caps(view) 
    14300 File
    14301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14302 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14303 subdivision = settings.clipping_cap_subdivision) 
    14304 File
    14305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14306 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14307 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14308 File
    14309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14310 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14311 cm.set_geometry(varray, narray, tarray) 
    14312 File
    14313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14314 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14315 arv() 
    14316 File
    14317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14318 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14319 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14320 File
    14321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14322 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14323 s.vertex_colors = self.vertex_colors(report_stats) 
    14324 File
    14325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14326 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14327 values, outside = self.volume_values() 
    14328 File
    14329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14330 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14331 return self.offset_values(v, n, tf) 
    14332 File
    14333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14334 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14335 values, outside = self.vertex_values(v, xf) 
    14336 File
    14337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14338 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14339 out_of_bounds_list = True) 
    14340 File
    14341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14342 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14343 subregion, step) 
    14344 File
    14345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14346 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14347 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14348 File
    14349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14350 packages/chimerax/map/volume.py", line 1243, in
    14351 matrix_indices_to_xyz_transform 
    14352 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14353 File
    14354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14355 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14356 r = self.subregion(step, subregion) 
    14357 File
    14358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14359 packages/chimerax/map/volume.py", line 1558, in subregion 
    14360 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14361 AttributeError: 'NoneType' object has no attribute 'size' 
    14362  
    14363 AttributeError: 'NoneType' object has no attribute 'size' 
    14364  
    14365 File
    14366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14367 packages/chimerax/map/volume.py", line 1558, in subregion 
    14368 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14369  
    14370 See log for complete Python traceback. 
    14371  
    14372 Traceback (most recent call last): 
    14373 File
    14374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14375 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14376 drew = self.draw_new_frame() 
    14377 File
    14378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14379 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14380 surface.update_clip_caps(view) 
    14381 File
    14382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14383 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14384 subdivision = settings.clipping_cap_subdivision) 
    14385 File
    14386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14387 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14388 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14389 File
    14390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14391 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14392 cm.set_geometry(varray, narray, tarray) 
    14393 File
    14394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14395 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14396 arv() 
    14397 File
    14398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14399 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14400 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14401 File
    14402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14403 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14404 s.vertex_colors = self.vertex_colors(report_stats) 
    14405 File
    14406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14407 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14408 values, outside = self.volume_values() 
    14409 File
    14410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14411 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14412 return self.offset_values(v, n, tf) 
    14413 File
    14414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14415 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14416 values, outside = self.vertex_values(v, xf) 
    14417 File
    14418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14419 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14420 out_of_bounds_list = True) 
    14421 File
    14422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14423 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14424 subregion, step) 
    14425 File
    14426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14427 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14428 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14429 File
    14430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14431 packages/chimerax/map/volume.py", line 1243, in
    14432 matrix_indices_to_xyz_transform 
    14433 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14434 File
    14435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14436 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14437 r = self.subregion(step, subregion) 
    14438 File
    14439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14440 packages/chimerax/map/volume.py", line 1558, in subregion 
    14441 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14442 AttributeError: 'NoneType' object has no attribute 'size' 
    14443  
    14444 AttributeError: 'NoneType' object has no attribute 'size' 
    14445  
    14446 File
    14447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14448 packages/chimerax/map/volume.py", line 1558, in subregion 
    14449 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14450  
    14451 See log for complete Python traceback. 
    14452  
    14453 Traceback (most recent call last): 
    14454 File
    14455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14456 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14457 drew = self.draw_new_frame() 
    14458 File
    14459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14460 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14461 surface.update_clip_caps(view) 
    14462 File
    14463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14464 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14465 subdivision = settings.clipping_cap_subdivision) 
    14466 File
    14467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14468 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14469 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14470 File
    14471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14472 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14473 cm.set_geometry(varray, narray, tarray) 
    14474 File
    14475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14476 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14477 arv() 
    14478 File
    14479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14480 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14481 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14482 File
    14483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14484 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14485 s.vertex_colors = self.vertex_colors(report_stats) 
    14486 File
    14487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14488 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14489 values, outside = self.volume_values() 
    14490 File
    14491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14492 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14493 return self.offset_values(v, n, tf) 
    14494 File
    14495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14496 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14497 values, outside = self.vertex_values(v, xf) 
    14498 File
    14499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14500 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14501 out_of_bounds_list = True) 
    14502 File
    14503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14504 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14505 subregion, step) 
    14506 File
    14507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14508 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14509 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14510 File
    14511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14512 packages/chimerax/map/volume.py", line 1243, in
    14513 matrix_indices_to_xyz_transform 
    14514 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14515 File
    14516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14517 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14518 r = self.subregion(step, subregion) 
    14519 File
    14520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14521 packages/chimerax/map/volume.py", line 1558, in subregion 
    14522 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14523 AttributeError: 'NoneType' object has no attribute 'size' 
    14524  
    14525 AttributeError: 'NoneType' object has no attribute 'size' 
    14526  
    14527 File
    14528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14529 packages/chimerax/map/volume.py", line 1558, in subregion 
    14530 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14531  
    14532 See log for complete Python traceback. 
    14533  
    14534 Traceback (most recent call last): 
    14535 File
    14536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14537 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14538 drew = self.draw_new_frame() 
    14539 File
    14540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14541 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14542 surface.update_clip_caps(view) 
    14543 File
    14544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14545 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14546 subdivision = settings.clipping_cap_subdivision) 
    14547 File
    14548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14549 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14550 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14551 File
    14552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14553 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14554 cm.set_geometry(varray, narray, tarray) 
    14555 File
    14556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14557 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14558 arv() 
    14559 File
    14560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14561 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14562 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14563 File
    14564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14565 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14566 s.vertex_colors = self.vertex_colors(report_stats) 
    14567 File
    14568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14569 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14570 values, outside = self.volume_values() 
    14571 File
    14572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14573 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14574 return self.offset_values(v, n, tf) 
    14575 File
    14576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14577 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14578 values, outside = self.vertex_values(v, xf) 
    14579 File
    14580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14581 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14582 out_of_bounds_list = True) 
    14583 File
    14584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14585 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14586 subregion, step) 
    14587 File
    14588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14589 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14590 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14591 File
    14592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14593 packages/chimerax/map/volume.py", line 1243, in
    14594 matrix_indices_to_xyz_transform 
    14595 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14596 File
    14597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14598 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14599 r = self.subregion(step, subregion) 
    14600 File
    14601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14602 packages/chimerax/map/volume.py", line 1558, in subregion 
    14603 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14604 AttributeError: 'NoneType' object has no attribute 'size' 
    14605  
    14606 AttributeError: 'NoneType' object has no attribute 'size' 
    14607  
    14608 File
    14609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14610 packages/chimerax/map/volume.py", line 1558, in subregion 
    14611 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14612  
    14613 See log for complete Python traceback. 
    14614  
    14615 Traceback (most recent call last): 
    14616 File
    14617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14618 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14619 drew = self.draw_new_frame() 
    14620 File
    14621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14622 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14623 surface.update_clip_caps(view) 
    14624 File
    14625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14626 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14627 subdivision = settings.clipping_cap_subdivision) 
    14628 File
    14629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14630 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14631 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14632 File
    14633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14634 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14635 cm.set_geometry(varray, narray, tarray) 
    14636 File
    14637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14638 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14639 arv() 
    14640 File
    14641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14642 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14643 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14644 File
    14645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14646 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14647 s.vertex_colors = self.vertex_colors(report_stats) 
    14648 File
    14649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14650 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14651 values, outside = self.volume_values() 
    14652 File
    14653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14654 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14655 return self.offset_values(v, n, tf) 
    14656 File
    14657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14658 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14659 values, outside = self.vertex_values(v, xf) 
    14660 File
    14661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14662 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14663 out_of_bounds_list = True) 
    14664 File
    14665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14666 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14667 subregion, step) 
    14668 File
    14669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14670 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14671 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14672 File
    14673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14674 packages/chimerax/map/volume.py", line 1243, in
    14675 matrix_indices_to_xyz_transform 
    14676 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14677 File
    14678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14679 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14680 r = self.subregion(step, subregion) 
    14681 File
    14682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14683 packages/chimerax/map/volume.py", line 1558, in subregion 
    14684 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14685 AttributeError: 'NoneType' object has no attribute 'size' 
    14686  
    14687 AttributeError: 'NoneType' object has no attribute 'size' 
    14688  
    14689 File
    14690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14691 packages/chimerax/map/volume.py", line 1558, in subregion 
    14692 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14693  
    14694 See log for complete Python traceback. 
    14695  
    14696 Traceback (most recent call last): 
    14697 File
    14698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14699 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14700 drew = self.draw_new_frame() 
    14701 File
    14702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14703 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14704 surface.update_clip_caps(view) 
    14705 File
    14706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14707 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14708 subdivision = settings.clipping_cap_subdivision) 
    14709 File
    14710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14711 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14712 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14713 File
    14714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14715 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14716 cm.set_geometry(varray, narray, tarray) 
    14717 File
    14718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14719 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14720 arv() 
    14721 File
    14722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14723 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14724 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14725 File
    14726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14727 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14728 s.vertex_colors = self.vertex_colors(report_stats) 
    14729 File
    14730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14731 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14732 values, outside = self.volume_values() 
    14733 File
    14734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14735 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14736 return self.offset_values(v, n, tf) 
    14737 File
    14738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14739 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14740 values, outside = self.vertex_values(v, xf) 
    14741 File
    14742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14743 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14744 out_of_bounds_list = True) 
    14745 File
    14746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14747 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14748 subregion, step) 
    14749 File
    14750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14751 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14752 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14753 File
    14754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14755 packages/chimerax/map/volume.py", line 1243, in
    14756 matrix_indices_to_xyz_transform 
    14757 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14758 File
    14759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14760 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14761 r = self.subregion(step, subregion) 
    14762 File
    14763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14764 packages/chimerax/map/volume.py", line 1558, in subregion 
    14765 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14766 AttributeError: 'NoneType' object has no attribute 'size' 
    14767  
    14768 AttributeError: 'NoneType' object has no attribute 'size' 
    14769  
    14770 File
    14771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14772 packages/chimerax/map/volume.py", line 1558, in subregion 
    14773 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14774  
    14775 See log for complete Python traceback. 
    14776  
    14777 Traceback (most recent call last): 
    14778 File
    14779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14780 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14781 drew = self.draw_new_frame() 
    14782 File
    14783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14784 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14785 surface.update_clip_caps(view) 
    14786 File
    14787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14788 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14789 subdivision = settings.clipping_cap_subdivision) 
    14790 File
    14791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14792 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14793 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14794 File
    14795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14796 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14797 cm.set_geometry(varray, narray, tarray) 
    14798 File
    14799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14800 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14801 arv() 
    14802 File
    14803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14804 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14805 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14806 File
    14807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14808 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14809 s.vertex_colors = self.vertex_colors(report_stats) 
    14810 File
    14811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14812 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14813 values, outside = self.volume_values() 
    14814 File
    14815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14816 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14817 return self.offset_values(v, n, tf) 
    14818 File
    14819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14820 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14821 values, outside = self.vertex_values(v, xf) 
    14822 File
    14823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14824 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14825 out_of_bounds_list = True) 
    14826 File
    14827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14828 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14829 subregion, step) 
    14830 File
    14831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14832 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14833 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14834 File
    14835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14836 packages/chimerax/map/volume.py", line 1243, in
    14837 matrix_indices_to_xyz_transform 
    14838 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14839 File
    14840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14841 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14842 r = self.subregion(step, subregion) 
    14843 File
    14844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14845 packages/chimerax/map/volume.py", line 1558, in subregion 
    14846 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14847 AttributeError: 'NoneType' object has no attribute 'size' 
    14848  
    14849 AttributeError: 'NoneType' object has no attribute 'size' 
    14850  
    14851 File
    14852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14853 packages/chimerax/map/volume.py", line 1558, in subregion 
    14854 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14855  
    14856 See log for complete Python traceback. 
    14857  
    14858 Traceback (most recent call last): 
    14859 File
    14860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14861 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14862 drew = self.draw_new_frame() 
    14863 File
    14864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14865 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14866 surface.update_clip_caps(view) 
    14867 File
    14868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14869 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14870 subdivision = settings.clipping_cap_subdivision) 
    14871 File
    14872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14873 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14874 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14875 File
    14876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14877 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14878 cm.set_geometry(varray, narray, tarray) 
    14879 File
    14880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14881 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14882 arv() 
    14883 File
    14884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14885 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14886 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14887 File
    14888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14889 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14890 s.vertex_colors = self.vertex_colors(report_stats) 
    14891 File
    14892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14893 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14894 values, outside = self.volume_values() 
    14895 File
    14896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14897 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14898 return self.offset_values(v, n, tf) 
    14899 File
    14900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14901 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14902 values, outside = self.vertex_values(v, xf) 
    14903 File
    14904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14905 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14906 out_of_bounds_list = True) 
    14907 File
    14908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14909 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14910 subregion, step) 
    14911 File
    14912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14913 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14914 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14915 File
    14916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14917 packages/chimerax/map/volume.py", line 1243, in
    14918 matrix_indices_to_xyz_transform 
    14919 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    14920 File
    14921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14922 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    14923 r = self.subregion(step, subregion) 
    14924 File
    14925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14926 packages/chimerax/map/volume.py", line 1558, in subregion 
    14927 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14928 AttributeError: 'NoneType' object has no attribute 'size' 
    14929  
    14930 AttributeError: 'NoneType' object has no attribute 'size' 
    14931  
    14932 File
    14933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14934 packages/chimerax/map/volume.py", line 1558, in subregion 
    14935 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    14936  
    14937 See log for complete Python traceback. 
    14938  
    14939 Traceback (most recent call last): 
    14940 File
    14941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14942 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    14943 drew = self.draw_new_frame() 
    14944 File
    14945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14946 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    14947 surface.update_clip_caps(view) 
    14948 File
    14949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14950 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    14951 subdivision = settings.clipping_cap_subdivision) 
    14952 File
    14953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14954 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    14955 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    14956 File
    14957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14958 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    14959 cm.set_geometry(varray, narray, tarray) 
    14960 File
    14961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14962 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    14963 arv() 
    14964 File
    14965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14966 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    14967 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    14968 File
    14969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14970 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    14971 s.vertex_colors = self.vertex_colors(report_stats) 
    14972 File
    14973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14974 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    14975 values, outside = self.volume_values() 
    14976 File
    14977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14978 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    14979 return self.offset_values(v, n, tf) 
    14980 File
    14981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14982 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    14983 values, outside = self.vertex_values(v, xf) 
    14984 File
    14985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14986 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    14987 out_of_bounds_list = True) 
    14988 File
    14989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14990 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    14991 subregion, step) 
    14992 File
    14993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14994 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    14995 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    14996 File
    14997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    14998 packages/chimerax/map/volume.py", line 1243, in
    14999 matrix_indices_to_xyz_transform 
    15000 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15001 File
    15002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15003 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15004 r = self.subregion(step, subregion) 
    15005 File
    15006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15007 packages/chimerax/map/volume.py", line 1558, in subregion 
    15008 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15009 AttributeError: 'NoneType' object has no attribute 'size' 
    15010  
    15011 AttributeError: 'NoneType' object has no attribute 'size' 
    15012  
    15013 File
    15014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15015 packages/chimerax/map/volume.py", line 1558, in subregion 
    15016 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15017  
    15018 See log for complete Python traceback. 
    15019  
    15020 Traceback (most recent call last): 
    15021 File
    15022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15023 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15024 drew = self.draw_new_frame() 
    15025 File
    15026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15027 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15028 surface.update_clip_caps(view) 
    15029 File
    15030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15031 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15032 subdivision = settings.clipping_cap_subdivision) 
    15033 File
    15034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15035 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15036 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15037 File
    15038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15039 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15040 cm.set_geometry(varray, narray, tarray) 
    15041 File
    15042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15043 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15044 arv() 
    15045 File
    15046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15047 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15048 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15049 File
    15050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15051 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15052 s.vertex_colors = self.vertex_colors(report_stats) 
    15053 File
    15054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15055 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15056 values, outside = self.volume_values() 
    15057 File
    15058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15059 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15060 return self.offset_values(v, n, tf) 
    15061 File
    15062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15063 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15064 values, outside = self.vertex_values(v, xf) 
    15065 File
    15066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15067 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15068 out_of_bounds_list = True) 
    15069 File
    15070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15071 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15072 subregion, step) 
    15073 File
    15074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15075 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15076 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15077 File
    15078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15079 packages/chimerax/map/volume.py", line 1243, in
    15080 matrix_indices_to_xyz_transform 
    15081 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15082 File
    15083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15084 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15085 r = self.subregion(step, subregion) 
    15086 File
    15087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15088 packages/chimerax/map/volume.py", line 1558, in subregion 
    15089 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15090 AttributeError: 'NoneType' object has no attribute 'size' 
    15091  
    15092 AttributeError: 'NoneType' object has no attribute 'size' 
    15093  
    15094 File
    15095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15096 packages/chimerax/map/volume.py", line 1558, in subregion 
    15097 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15098  
    15099 See log for complete Python traceback. 
    15100  
    15101 Traceback (most recent call last): 
    15102 File
    15103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15104 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15105 drew = self.draw_new_frame() 
    15106 File
    15107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15108 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15109 surface.update_clip_caps(view) 
    15110 File
    15111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15112 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15113 subdivision = settings.clipping_cap_subdivision) 
    15114 File
    15115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15116 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15117 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15118 File
    15119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15120 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15121 cm.set_geometry(varray, narray, tarray) 
    15122 File
    15123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15124 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15125 arv() 
    15126 File
    15127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15128 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15129 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15130 File
    15131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15132 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15133 s.vertex_colors = self.vertex_colors(report_stats) 
    15134 File
    15135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15136 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15137 values, outside = self.volume_values() 
    15138 File
    15139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15140 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15141 return self.offset_values(v, n, tf) 
    15142 File
    15143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15144 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15145 values, outside = self.vertex_values(v, xf) 
    15146 File
    15147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15148 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15149 out_of_bounds_list = True) 
    15150 File
    15151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15152 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15153 subregion, step) 
    15154 File
    15155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15156 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15157 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15158 File
    15159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15160 packages/chimerax/map/volume.py", line 1243, in
    15161 matrix_indices_to_xyz_transform 
    15162 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15163 File
    15164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15165 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15166 r = self.subregion(step, subregion) 
    15167 File
    15168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15169 packages/chimerax/map/volume.py", line 1558, in subregion 
    15170 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15171 AttributeError: 'NoneType' object has no attribute 'size' 
    15172  
    15173 AttributeError: 'NoneType' object has no attribute 'size' 
    15174  
    15175 File
    15176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15177 packages/chimerax/map/volume.py", line 1558, in subregion 
    15178 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15179  
    15180 See log for complete Python traceback. 
    15181  
    15182 Traceback (most recent call last): 
    15183 File
    15184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15185 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15186 drew = self.draw_new_frame() 
    15187 File
    15188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15189 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15190 surface.update_clip_caps(view) 
    15191 File
    15192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15193 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15194 subdivision = settings.clipping_cap_subdivision) 
    15195 File
    15196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15197 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15198 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15199 File
    15200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15201 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15202 cm.set_geometry(varray, narray, tarray) 
    15203 File
    15204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15205 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15206 arv() 
    15207 File
    15208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15209 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15210 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15211 File
    15212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15213 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15214 s.vertex_colors = self.vertex_colors(report_stats) 
    15215 File
    15216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15217 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15218 values, outside = self.volume_values() 
    15219 File
    15220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15221 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15222 return self.offset_values(v, n, tf) 
    15223 File
    15224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15225 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15226 values, outside = self.vertex_values(v, xf) 
    15227 File
    15228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15229 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15230 out_of_bounds_list = True) 
    15231 File
    15232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15233 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15234 subregion, step) 
    15235 File
    15236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15237 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15238 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15239 File
    15240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15241 packages/chimerax/map/volume.py", line 1243, in
    15242 matrix_indices_to_xyz_transform 
    15243 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15244 File
    15245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15246 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15247 r = self.subregion(step, subregion) 
    15248 File
    15249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15250 packages/chimerax/map/volume.py", line 1558, in subregion 
    15251 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15252 AttributeError: 'NoneType' object has no attribute 'size' 
    15253  
    15254 AttributeError: 'NoneType' object has no attribute 'size' 
    15255  
    15256 File
    15257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15258 packages/chimerax/map/volume.py", line 1558, in subregion 
    15259 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15260  
    15261 See log for complete Python traceback. 
    15262  
    15263 Traceback (most recent call last): 
    15264 File
    15265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15266 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15267 drew = self.draw_new_frame() 
    15268 File
    15269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15270 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15271 surface.update_clip_caps(view) 
    15272 File
    15273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15274 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15275 subdivision = settings.clipping_cap_subdivision) 
    15276 File
    15277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15278 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15279 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15280 File
    15281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15282 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15283 cm.set_geometry(varray, narray, tarray) 
    15284 File
    15285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15286 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15287 arv() 
    15288 File
    15289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15290 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15291 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15292 File
    15293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15294 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15295 s.vertex_colors = self.vertex_colors(report_stats) 
    15296 File
    15297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15298 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15299 values, outside = self.volume_values() 
    15300 File
    15301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15302 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15303 return self.offset_values(v, n, tf) 
    15304 File
    15305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15306 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15307 values, outside = self.vertex_values(v, xf) 
    15308 File
    15309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15310 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15311 out_of_bounds_list = True) 
    15312 File
    15313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15314 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15315 subregion, step) 
    15316 File
    15317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15318 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15319 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15320 File
    15321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15322 packages/chimerax/map/volume.py", line 1243, in
    15323 matrix_indices_to_xyz_transform 
    15324 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15325 File
    15326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15327 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15328 r = self.subregion(step, subregion) 
    15329 File
    15330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15331 packages/chimerax/map/volume.py", line 1558, in subregion 
    15332 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15333 AttributeError: 'NoneType' object has no attribute 'size' 
    15334  
    15335 AttributeError: 'NoneType' object has no attribute 'size' 
    15336  
    15337 File
    15338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15339 packages/chimerax/map/volume.py", line 1558, in subregion 
    15340 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15341  
    15342 See log for complete Python traceback. 
    15343  
    15344 Traceback (most recent call last): 
    15345 File
    15346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15347 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15348 drew = self.draw_new_frame() 
    15349 File
    15350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15351 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15352 surface.update_clip_caps(view) 
    15353 File
    15354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15355 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15356 subdivision = settings.clipping_cap_subdivision) 
    15357 File
    15358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15359 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15360 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15361 File
    15362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15363 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15364 cm.set_geometry(varray, narray, tarray) 
    15365 File
    15366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15367 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15368 arv() 
    15369 File
    15370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15371 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15372 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15373 File
    15374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15375 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15376 s.vertex_colors = self.vertex_colors(report_stats) 
    15377 File
    15378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15379 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15380 values, outside = self.volume_values() 
    15381 File
    15382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15383 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15384 return self.offset_values(v, n, tf) 
    15385 File
    15386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15387 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15388 values, outside = self.vertex_values(v, xf) 
    15389 File
    15390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15391 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15392 out_of_bounds_list = True) 
    15393 File
    15394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15395 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15396 subregion, step) 
    15397 File
    15398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15399 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15400 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15401 File
    15402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15403 packages/chimerax/map/volume.py", line 1243, in
    15404 matrix_indices_to_xyz_transform 
    15405 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15406 File
    15407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15408 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15409 r = self.subregion(step, subregion) 
    15410 File
    15411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15412 packages/chimerax/map/volume.py", line 1558, in subregion 
    15413 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15414 AttributeError: 'NoneType' object has no attribute 'size' 
    15415  
    15416 AttributeError: 'NoneType' object has no attribute 'size' 
    15417  
    15418 File
    15419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15420 packages/chimerax/map/volume.py", line 1558, in subregion 
    15421 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15422  
    15423 See log for complete Python traceback. 
    15424  
    15425 Traceback (most recent call last): 
    15426 File
    15427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15428 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15429 drew = self.draw_new_frame() 
    15430 File
    15431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15432 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15433 surface.update_clip_caps(view) 
    15434 File
    15435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15436 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15437 subdivision = settings.clipping_cap_subdivision) 
    15438 File
    15439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15440 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15441 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15442 File
    15443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15444 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15445 cm.set_geometry(varray, narray, tarray) 
    15446 File
    15447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15448 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15449 arv() 
    15450 File
    15451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15452 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15453 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15454 File
    15455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15456 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15457 s.vertex_colors = self.vertex_colors(report_stats) 
    15458 File
    15459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15460 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15461 values, outside = self.volume_values() 
    15462 File
    15463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15464 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15465 return self.offset_values(v, n, tf) 
    15466 File
    15467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15468 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15469 values, outside = self.vertex_values(v, xf) 
    15470 File
    15471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15472 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15473 out_of_bounds_list = True) 
    15474 File
    15475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15476 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15477 subregion, step) 
    15478 File
    15479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15480 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15481 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15482 File
    15483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15484 packages/chimerax/map/volume.py", line 1243, in
    15485 matrix_indices_to_xyz_transform 
    15486 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15487 File
    15488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15489 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15490 r = self.subregion(step, subregion) 
    15491 File
    15492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15493 packages/chimerax/map/volume.py", line 1558, in subregion 
    15494 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15495 AttributeError: 'NoneType' object has no attribute 'size' 
    15496  
    15497 AttributeError: 'NoneType' object has no attribute 'size' 
    15498  
    15499 File
    15500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15501 packages/chimerax/map/volume.py", line 1558, in subregion 
    15502 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15503  
    15504 See log for complete Python traceback. 
    15505  
    15506 Traceback (most recent call last): 
    15507 File
    15508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15509 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15510 drew = self.draw_new_frame() 
    15511 File
    15512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15513 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15514 surface.update_clip_caps(view) 
    15515 File
    15516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15517 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15518 subdivision = settings.clipping_cap_subdivision) 
    15519 File
    15520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15521 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15522 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15523 File
    15524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15525 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15526 cm.set_geometry(varray, narray, tarray) 
    15527 File
    15528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15529 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15530 arv() 
    15531 File
    15532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15533 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15534 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15535 File
    15536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15537 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15538 s.vertex_colors = self.vertex_colors(report_stats) 
    15539 File
    15540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15541 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15542 values, outside = self.volume_values() 
    15543 File
    15544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15545 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15546 return self.offset_values(v, n, tf) 
    15547 File
    15548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15549 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15550 values, outside = self.vertex_values(v, xf) 
    15551 File
    15552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15553 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15554 out_of_bounds_list = True) 
    15555 File
    15556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15557 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15558 subregion, step) 
    15559 File
    15560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15561 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15562 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15563 File
    15564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15565 packages/chimerax/map/volume.py", line 1243, in
    15566 matrix_indices_to_xyz_transform 
    15567 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15568 File
    15569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15570 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15571 r = self.subregion(step, subregion) 
    15572 File
    15573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15574 packages/chimerax/map/volume.py", line 1558, in subregion 
    15575 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15576 AttributeError: 'NoneType' object has no attribute 'size' 
    15577  
    15578 AttributeError: 'NoneType' object has no attribute 'size' 
    15579  
    15580 File
    15581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15582 packages/chimerax/map/volume.py", line 1558, in subregion 
    15583 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15584  
    15585 See log for complete Python traceback. 
    15586  
    15587 Traceback (most recent call last): 
    15588 File
    15589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15590 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15591 drew = self.draw_new_frame() 
    15592 File
    15593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15594 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15595 surface.update_clip_caps(view) 
    15596 File
    15597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15598 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15599 subdivision = settings.clipping_cap_subdivision) 
    15600 File
    15601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15602 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15603 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15604 File
    15605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15606 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15607 cm.set_geometry(varray, narray, tarray) 
    15608 File
    15609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15610 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15611 arv() 
    15612 File
    15613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15614 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15615 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15616 File
    15617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15618 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15619 s.vertex_colors = self.vertex_colors(report_stats) 
    15620 File
    15621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15622 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15623 values, outside = self.volume_values() 
    15624 File
    15625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15626 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15627 return self.offset_values(v, n, tf) 
    15628 File
    15629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15630 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15631 values, outside = self.vertex_values(v, xf) 
    15632 File
    15633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15634 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15635 out_of_bounds_list = True) 
    15636 File
    15637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15638 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15639 subregion, step) 
    15640 File
    15641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15642 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15643 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15644 File
    15645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15646 packages/chimerax/map/volume.py", line 1243, in
    15647 matrix_indices_to_xyz_transform 
    15648 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15649 File
    15650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15651 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15652 r = self.subregion(step, subregion) 
    15653 File
    15654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15655 packages/chimerax/map/volume.py", line 1558, in subregion 
    15656 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15657 AttributeError: 'NoneType' object has no attribute 'size' 
    15658  
    15659 AttributeError: 'NoneType' object has no attribute 'size' 
    15660  
    15661 File
    15662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15663 packages/chimerax/map/volume.py", line 1558, in subregion 
    15664 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15665  
    15666 See log for complete Python traceback. 
    15667  
    15668 Traceback (most recent call last): 
    15669 File
    15670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15671 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15672 drew = self.draw_new_frame() 
    15673 File
    15674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15675 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15676 surface.update_clip_caps(view) 
    15677 File
    15678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15679 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15680 subdivision = settings.clipping_cap_subdivision) 
    15681 File
    15682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15683 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15684 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15685 File
    15686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15687 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15688 cm.set_geometry(varray, narray, tarray) 
    15689 File
    15690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15691 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15692 arv() 
    15693 File
    15694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15695 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15696 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15697 File
    15698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15699 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15700 s.vertex_colors = self.vertex_colors(report_stats) 
    15701 File
    15702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15703 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15704 values, outside = self.volume_values() 
    15705 File
    15706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15707 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15708 return self.offset_values(v, n, tf) 
    15709 File
    15710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15711 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15712 values, outside = self.vertex_values(v, xf) 
    15713 File
    15714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15715 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15716 out_of_bounds_list = True) 
    15717 File
    15718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15719 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15720 subregion, step) 
    15721 File
    15722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15723 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15724 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15725 File
    15726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15727 packages/chimerax/map/volume.py", line 1243, in
    15728 matrix_indices_to_xyz_transform 
    15729 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15730 File
    15731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15732 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15733 r = self.subregion(step, subregion) 
    15734 File
    15735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15736 packages/chimerax/map/volume.py", line 1558, in subregion 
    15737 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15738 AttributeError: 'NoneType' object has no attribute 'size' 
    15739  
    15740 AttributeError: 'NoneType' object has no attribute 'size' 
    15741  
    15742 File
    15743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15744 packages/chimerax/map/volume.py", line 1558, in subregion 
    15745 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15746  
    15747 See log for complete Python traceback. 
    15748  
    15749 Traceback (most recent call last): 
    15750 File
    15751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15752 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15753 drew = self.draw_new_frame() 
    15754 File
    15755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15756 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15757 surface.update_clip_caps(view) 
    15758 File
    15759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15760 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15761 subdivision = settings.clipping_cap_subdivision) 
    15762 File
    15763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15764 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15765 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15766 File
    15767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15768 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15769 cm.set_geometry(varray, narray, tarray) 
    15770 File
    15771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15772 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15773 arv() 
    15774 File
    15775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15776 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15777 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15778 File
    15779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15780 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15781 s.vertex_colors = self.vertex_colors(report_stats) 
    15782 File
    15783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15784 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15785 values, outside = self.volume_values() 
    15786 File
    15787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15788 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15789 return self.offset_values(v, n, tf) 
    15790 File
    15791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15792 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15793 values, outside = self.vertex_values(v, xf) 
    15794 File
    15795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15796 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15797 out_of_bounds_list = True) 
    15798 File
    15799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15800 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15801 subregion, step) 
    15802 File
    15803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15804 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15805 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15806 File
    15807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15808 packages/chimerax/map/volume.py", line 1243, in
    15809 matrix_indices_to_xyz_transform 
    15810 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15811 File
    15812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15813 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15814 r = self.subregion(step, subregion) 
    15815 File
    15816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15817 packages/chimerax/map/volume.py", line 1558, in subregion 
    15818 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15819 AttributeError: 'NoneType' object has no attribute 'size' 
    15820  
    15821 AttributeError: 'NoneType' object has no attribute 'size' 
    15822  
    15823 File
    15824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15825 packages/chimerax/map/volume.py", line 1558, in subregion 
    15826 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15827  
    15828 See log for complete Python traceback. 
    15829  
    15830 Traceback (most recent call last): 
    15831 File
    15832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15833 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15834 drew = self.draw_new_frame() 
    15835 File
    15836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15837 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15838 surface.update_clip_caps(view) 
    15839 File
    15840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15841 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15842 subdivision = settings.clipping_cap_subdivision) 
    15843 File
    15844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15845 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15846 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15847 File
    15848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15849 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15850 cm.set_geometry(varray, narray, tarray) 
    15851 File
    15852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15853 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15854 arv() 
    15855 File
    15856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15857 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15858 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15859 File
    15860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15861 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15862 s.vertex_colors = self.vertex_colors(report_stats) 
    15863 File
    15864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15865 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15866 values, outside = self.volume_values() 
    15867 File
    15868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15869 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15870 return self.offset_values(v, n, tf) 
    15871 File
    15872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15873 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15874 values, outside = self.vertex_values(v, xf) 
    15875 File
    15876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15877 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15878 out_of_bounds_list = True) 
    15879 File
    15880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15881 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15882 subregion, step) 
    15883 File
    15884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15885 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15886 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15887 File
    15888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15889 packages/chimerax/map/volume.py", line 1243, in
    15890 matrix_indices_to_xyz_transform 
    15891 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15892 File
    15893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15894 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15895 r = self.subregion(step, subregion) 
    15896 File
    15897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15898 packages/chimerax/map/volume.py", line 1558, in subregion 
    15899 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15900 AttributeError: 'NoneType' object has no attribute 'size' 
    15901  
    15902 AttributeError: 'NoneType' object has no attribute 'size' 
    15903  
    15904 File
    15905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15906 packages/chimerax/map/volume.py", line 1558, in subregion 
    15907 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15908  
    15909 See log for complete Python traceback. 
    15910  
    15911 Traceback (most recent call last): 
    15912 File
    15913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15914 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15915 drew = self.draw_new_frame() 
    15916 File
    15917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15918 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    15919 surface.update_clip_caps(view) 
    15920 File
    15921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15922 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    15923 subdivision = settings.clipping_cap_subdivision) 
    15924 File
    15925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15926 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    15927 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    15928 File
    15929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15930 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    15931 cm.set_geometry(varray, narray, tarray) 
    15932 File
    15933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15934 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    15935 arv() 
    15936 File
    15937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15938 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    15939 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    15940 File
    15941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15942 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    15943 s.vertex_colors = self.vertex_colors(report_stats) 
    15944 File
    15945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15946 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    15947 values, outside = self.volume_values() 
    15948 File
    15949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15950 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    15951 return self.offset_values(v, n, tf) 
    15952 File
    15953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15954 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    15955 values, outside = self.vertex_values(v, xf) 
    15956 File
    15957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15958 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    15959 out_of_bounds_list = True) 
    15960 File
    15961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15962 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    15963 subregion, step) 
    15964 File
    15965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15966 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    15967 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    15968 File
    15969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15970 packages/chimerax/map/volume.py", line 1243, in
    15971 matrix_indices_to_xyz_transform 
    15972 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    15973 File
    15974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15975 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    15976 r = self.subregion(step, subregion) 
    15977 File
    15978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15979 packages/chimerax/map/volume.py", line 1558, in subregion 
    15980 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15981 AttributeError: 'NoneType' object has no attribute 'size' 
    15982  
    15983 AttributeError: 'NoneType' object has no attribute 'size' 
    15984  
    15985 File
    15986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15987 packages/chimerax/map/volume.py", line 1558, in subregion 
    15988 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    15989  
    15990 See log for complete Python traceback. 
    15991  
    15992 Traceback (most recent call last): 
    15993 File
    15994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15995 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    15996 drew = self.draw_new_frame() 
    15997 File
    15998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    15999 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16000 surface.update_clip_caps(view) 
    16001 File
    16002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16003 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16004 subdivision = settings.clipping_cap_subdivision) 
    16005 File
    16006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16007 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16008 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16009 File
    16010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16011 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16012 cm.set_geometry(varray, narray, tarray) 
    16013 File
    16014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16015 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16016 arv() 
    16017 File
    16018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16019 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16020 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16021 File
    16022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16023 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16024 s.vertex_colors = self.vertex_colors(report_stats) 
    16025 File
    16026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16027 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16028 values, outside = self.volume_values() 
    16029 File
    16030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16031 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16032 return self.offset_values(v, n, tf) 
    16033 File
    16034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16035 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16036 values, outside = self.vertex_values(v, xf) 
    16037 File
    16038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16039 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16040 out_of_bounds_list = True) 
    16041 File
    16042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16043 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16044 subregion, step) 
    16045 File
    16046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16047 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16048 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16049 File
    16050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16051 packages/chimerax/map/volume.py", line 1243, in
    16052 matrix_indices_to_xyz_transform 
    16053 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16054 File
    16055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16056 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16057 r = self.subregion(step, subregion) 
    16058 File
    16059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16060 packages/chimerax/map/volume.py", line 1558, in subregion 
    16061 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16062 AttributeError: 'NoneType' object has no attribute 'size' 
    16063  
    16064 AttributeError: 'NoneType' object has no attribute 'size' 
    16065  
    16066 File
    16067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16068 packages/chimerax/map/volume.py", line 1558, in subregion 
    16069 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16070  
    16071 See log for complete Python traceback. 
    16072  
    16073 Traceback (most recent call last): 
    16074 File
    16075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16076 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16077 drew = self.draw_new_frame() 
    16078 File
    16079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16080 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16081 surface.update_clip_caps(view) 
    16082 File
    16083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16084 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16085 subdivision = settings.clipping_cap_subdivision) 
    16086 File
    16087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16088 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16089 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16090 File
    16091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16092 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16093 cm.set_geometry(varray, narray, tarray) 
    16094 File
    16095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16096 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16097 arv() 
    16098 File
    16099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16100 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16101 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16102 File
    16103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16104 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16105 s.vertex_colors = self.vertex_colors(report_stats) 
    16106 File
    16107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16108 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16109 values, outside = self.volume_values() 
    16110 File
    16111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16112 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16113 return self.offset_values(v, n, tf) 
    16114 File
    16115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16116 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16117 values, outside = self.vertex_values(v, xf) 
    16118 File
    16119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16120 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16121 out_of_bounds_list = True) 
    16122 File
    16123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16124 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16125 subregion, step) 
    16126 File
    16127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16128 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16129 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16130 File
    16131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16132 packages/chimerax/map/volume.py", line 1243, in
    16133 matrix_indices_to_xyz_transform 
    16134 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16135 File
    16136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16137 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16138 r = self.subregion(step, subregion) 
    16139 File
    16140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16141 packages/chimerax/map/volume.py", line 1558, in subregion 
    16142 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16143 AttributeError: 'NoneType' object has no attribute 'size' 
    16144  
    16145 AttributeError: 'NoneType' object has no attribute 'size' 
    16146  
    16147 File
    16148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16149 packages/chimerax/map/volume.py", line 1558, in subregion 
    16150 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16151  
    16152 See log for complete Python traceback. 
    16153  
    16154 Traceback (most recent call last): 
    16155 File
    16156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16157 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16158 drew = self.draw_new_frame() 
    16159 File
    16160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16161 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16162 surface.update_clip_caps(view) 
    16163 File
    16164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16165 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16166 subdivision = settings.clipping_cap_subdivision) 
    16167 File
    16168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16169 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16170 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16171 File
    16172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16173 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16174 cm.set_geometry(varray, narray, tarray) 
    16175 File
    16176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16177 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16178 arv() 
    16179 File
    16180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16181 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16182 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16183 File
    16184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16185 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16186 s.vertex_colors = self.vertex_colors(report_stats) 
    16187 File
    16188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16189 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16190 values, outside = self.volume_values() 
    16191 File
    16192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16193 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16194 return self.offset_values(v, n, tf) 
    16195 File
    16196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16197 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16198 values, outside = self.vertex_values(v, xf) 
    16199 File
    16200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16201 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16202 out_of_bounds_list = True) 
    16203 File
    16204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16205 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16206 subregion, step) 
    16207 File
    16208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16209 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16210 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16211 File
    16212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16213 packages/chimerax/map/volume.py", line 1243, in
    16214 matrix_indices_to_xyz_transform 
    16215 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16216 File
    16217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16218 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16219 r = self.subregion(step, subregion) 
    16220 File
    16221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16222 packages/chimerax/map/volume.py", line 1558, in subregion 
    16223 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16224 AttributeError: 'NoneType' object has no attribute 'size' 
    16225  
    16226 AttributeError: 'NoneType' object has no attribute 'size' 
    16227  
    16228 File
    16229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16230 packages/chimerax/map/volume.py", line 1558, in subregion 
    16231 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16232  
    16233 See log for complete Python traceback. 
    16234  
    16235 Traceback (most recent call last): 
    16236 File
    16237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16238 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16239 drew = self.draw_new_frame() 
    16240 File
    16241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16242 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16243 surface.update_clip_caps(view) 
    16244 File
    16245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16246 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16247 subdivision = settings.clipping_cap_subdivision) 
    16248 File
    16249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16250 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16251 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16252 File
    16253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16254 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16255 cm.set_geometry(varray, narray, tarray) 
    16256 File
    16257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16258 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16259 arv() 
    16260 File
    16261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16262 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16263 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16264 File
    16265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16266 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16267 s.vertex_colors = self.vertex_colors(report_stats) 
    16268 File
    16269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16270 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16271 values, outside = self.volume_values() 
    16272 File
    16273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16274 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16275 return self.offset_values(v, n, tf) 
    16276 File
    16277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16278 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16279 values, outside = self.vertex_values(v, xf) 
    16280 File
    16281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16282 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16283 out_of_bounds_list = True) 
    16284 File
    16285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16286 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16287 subregion, step) 
    16288 File
    16289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16290 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16291 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16292 File
    16293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16294 packages/chimerax/map/volume.py", line 1243, in
    16295 matrix_indices_to_xyz_transform 
    16296 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16297 File
    16298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16299 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16300 r = self.subregion(step, subregion) 
    16301 File
    16302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16303 packages/chimerax/map/volume.py", line 1558, in subregion 
    16304 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16305 AttributeError: 'NoneType' object has no attribute 'size' 
    16306  
    16307 AttributeError: 'NoneType' object has no attribute 'size' 
    16308  
    16309 File
    16310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16311 packages/chimerax/map/volume.py", line 1558, in subregion 
    16312 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16313  
    16314 See log for complete Python traceback. 
    16315  
    16316 Traceback (most recent call last): 
    16317 File
    16318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16319 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16320 drew = self.draw_new_frame() 
    16321 File
    16322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16323 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16324 surface.update_clip_caps(view) 
    16325 File
    16326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16327 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16328 subdivision = settings.clipping_cap_subdivision) 
    16329 File
    16330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16331 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16332 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16333 File
    16334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16335 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16336 cm.set_geometry(varray, narray, tarray) 
    16337 File
    16338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16339 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16340 arv() 
    16341 File
    16342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16343 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16344 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16345 File
    16346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16347 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16348 s.vertex_colors = self.vertex_colors(report_stats) 
    16349 File
    16350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16351 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16352 values, outside = self.volume_values() 
    16353 File
    16354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16355 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16356 return self.offset_values(v, n, tf) 
    16357 File
    16358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16359 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16360 values, outside = self.vertex_values(v, xf) 
    16361 File
    16362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16363 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16364 out_of_bounds_list = True) 
    16365 File
    16366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16367 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16368 subregion, step) 
    16369 File
    16370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16371 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16372 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16373 File
    16374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16375 packages/chimerax/map/volume.py", line 1243, in
    16376 matrix_indices_to_xyz_transform 
    16377 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16378 File
    16379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16380 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16381 r = self.subregion(step, subregion) 
    16382 File
    16383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16384 packages/chimerax/map/volume.py", line 1558, in subregion 
    16385 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16386 AttributeError: 'NoneType' object has no attribute 'size' 
    16387  
    16388 AttributeError: 'NoneType' object has no attribute 'size' 
    16389  
    16390 File
    16391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16392 packages/chimerax/map/volume.py", line 1558, in subregion 
    16393 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16394  
    16395 See log for complete Python traceback. 
    16396  
    16397 Traceback (most recent call last): 
    16398 File
    16399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16400 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16401 drew = self.draw_new_frame() 
    16402 File
    16403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16404 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16405 surface.update_clip_caps(view) 
    16406 File
    16407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16408 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16409 subdivision = settings.clipping_cap_subdivision) 
    16410 File
    16411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16412 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16413 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16414 File
    16415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16416 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16417 cm.set_geometry(varray, narray, tarray) 
    16418 File
    16419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16420 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16421 arv() 
    16422 File
    16423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16424 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16425 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16426 File
    16427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16428 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16429 s.vertex_colors = self.vertex_colors(report_stats) 
    16430 File
    16431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16432 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16433 values, outside = self.volume_values() 
    16434 File
    16435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16436 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16437 return self.offset_values(v, n, tf) 
    16438 File
    16439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16440 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16441 values, outside = self.vertex_values(v, xf) 
    16442 File
    16443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16444 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16445 out_of_bounds_list = True) 
    16446 File
    16447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16448 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16449 subregion, step) 
    16450 File
    16451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16452 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16453 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16454 File
    16455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16456 packages/chimerax/map/volume.py", line 1243, in
    16457 matrix_indices_to_xyz_transform 
    16458 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16459 File
    16460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16461 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16462 r = self.subregion(step, subregion) 
    16463 File
    16464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16465 packages/chimerax/map/volume.py", line 1558, in subregion 
    16466 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16467 AttributeError: 'NoneType' object has no attribute 'size' 
    16468  
    16469 AttributeError: 'NoneType' object has no attribute 'size' 
    16470  
    16471 File
    16472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16473 packages/chimerax/map/volume.py", line 1558, in subregion 
    16474 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16475  
    16476 See log for complete Python traceback. 
    16477  
    16478 Traceback (most recent call last): 
    16479 File
    16480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16481 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16482 drew = self.draw_new_frame() 
    16483 File
    16484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16485 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16486 surface.update_clip_caps(view) 
    16487 File
    16488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16489 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16490 subdivision = settings.clipping_cap_subdivision) 
    16491 File
    16492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16493 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16494 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16495 File
    16496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16497 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16498 cm.set_geometry(varray, narray, tarray) 
    16499 File
    16500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16501 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16502 arv() 
    16503 File
    16504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16505 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16506 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16507 File
    16508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16509 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16510 s.vertex_colors = self.vertex_colors(report_stats) 
    16511 File
    16512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16513 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16514 values, outside = self.volume_values() 
    16515 File
    16516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16517 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16518 return self.offset_values(v, n, tf) 
    16519 File
    16520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16521 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16522 values, outside = self.vertex_values(v, xf) 
    16523 File
    16524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16525 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16526 out_of_bounds_list = True) 
    16527 File
    16528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16529 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16530 subregion, step) 
    16531 File
    16532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16533 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16534 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16535 File
    16536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16537 packages/chimerax/map/volume.py", line 1243, in
    16538 matrix_indices_to_xyz_transform 
    16539 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16540 File
    16541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16542 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16543 r = self.subregion(step, subregion) 
    16544 File
    16545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16546 packages/chimerax/map/volume.py", line 1558, in subregion 
    16547 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16548 AttributeError: 'NoneType' object has no attribute 'size' 
    16549  
    16550 AttributeError: 'NoneType' object has no attribute 'size' 
    16551  
    16552 File
    16553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16554 packages/chimerax/map/volume.py", line 1558, in subregion 
    16555 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16556  
    16557 See log for complete Python traceback. 
    16558  
    16559 Traceback (most recent call last): 
    16560 File
    16561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16562 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16563 drew = self.draw_new_frame() 
    16564 File
    16565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16566 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16567 surface.update_clip_caps(view) 
    16568 File
    16569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16570 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16571 subdivision = settings.clipping_cap_subdivision) 
    16572 File
    16573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16574 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16575 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16576 File
    16577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16578 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16579 cm.set_geometry(varray, narray, tarray) 
    16580 File
    16581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16582 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16583 arv() 
    16584 File
    16585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16586 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16587 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16588 File
    16589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16590 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16591 s.vertex_colors = self.vertex_colors(report_stats) 
    16592 File
    16593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16594 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16595 values, outside = self.volume_values() 
    16596 File
    16597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16598 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16599 return self.offset_values(v, n, tf) 
    16600 File
    16601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16602 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16603 values, outside = self.vertex_values(v, xf) 
    16604 File
    16605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16606 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16607 out_of_bounds_list = True) 
    16608 File
    16609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16610 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16611 subregion, step) 
    16612 File
    16613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16614 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16615 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16616 File
    16617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16618 packages/chimerax/map/volume.py", line 1243, in
    16619 matrix_indices_to_xyz_transform 
    16620 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16621 File
    16622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16623 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16624 r = self.subregion(step, subregion) 
    16625 File
    16626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16627 packages/chimerax/map/volume.py", line 1558, in subregion 
    16628 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16629 AttributeError: 'NoneType' object has no attribute 'size' 
    16630  
    16631 AttributeError: 'NoneType' object has no attribute 'size' 
    16632  
    16633 File
    16634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16635 packages/chimerax/map/volume.py", line 1558, in subregion 
    16636 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16637  
    16638 See log for complete Python traceback. 
    16639  
    16640 Traceback (most recent call last): 
    16641 File
    16642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16643 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16644 drew = self.draw_new_frame() 
    16645 File
    16646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16647 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16648 surface.update_clip_caps(view) 
    16649 File
    16650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16651 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16652 subdivision = settings.clipping_cap_subdivision) 
    16653 File
    16654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16655 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16656 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16657 File
    16658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16659 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16660 cm.set_geometry(varray, narray, tarray) 
    16661 File
    16662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16663 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16664 arv() 
    16665 File
    16666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16667 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16668 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16669 File
    16670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16671 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16672 s.vertex_colors = self.vertex_colors(report_stats) 
    16673 File
    16674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16675 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16676 values, outside = self.volume_values() 
    16677 File
    16678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16679 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16680 return self.offset_values(v, n, tf) 
    16681 File
    16682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16683 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16684 values, outside = self.vertex_values(v, xf) 
    16685 File
    16686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16687 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16688 out_of_bounds_list = True) 
    16689 File
    16690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16691 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16692 subregion, step) 
    16693 File
    16694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16695 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16696 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16697 File
    16698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16699 packages/chimerax/map/volume.py", line 1243, in
    16700 matrix_indices_to_xyz_transform 
    16701 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16702 File
    16703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16704 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16705 r = self.subregion(step, subregion) 
    16706 File
    16707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16708 packages/chimerax/map/volume.py", line 1558, in subregion 
    16709 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16710 AttributeError: 'NoneType' object has no attribute 'size' 
    16711  
    16712 AttributeError: 'NoneType' object has no attribute 'size' 
    16713  
    16714 File
    16715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16716 packages/chimerax/map/volume.py", line 1558, in subregion 
    16717 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16718  
    16719 See log for complete Python traceback. 
    16720  
    16721 Traceback (most recent call last): 
    16722 File
    16723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16724 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16725 drew = self.draw_new_frame() 
    16726 File
    16727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16728 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16729 surface.update_clip_caps(view) 
    16730 File
    16731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16732 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16733 subdivision = settings.clipping_cap_subdivision) 
    16734 File
    16735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16736 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16737 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16738 File
    16739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16740 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16741 cm.set_geometry(varray, narray, tarray) 
    16742 File
    16743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16744 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16745 arv() 
    16746 File
    16747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16748 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16749 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16750 File
    16751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16752 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16753 s.vertex_colors = self.vertex_colors(report_stats) 
    16754 File
    16755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16756 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16757 values, outside = self.volume_values() 
    16758 File
    16759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16760 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16761 return self.offset_values(v, n, tf) 
    16762 File
    16763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16764 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16765 values, outside = self.vertex_values(v, xf) 
    16766 File
    16767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16768 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16769 out_of_bounds_list = True) 
    16770 File
    16771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16772 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16773 subregion, step) 
    16774 File
    16775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16776 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16777 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16778 File
    16779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16780 packages/chimerax/map/volume.py", line 1243, in
    16781 matrix_indices_to_xyz_transform 
    16782 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16783 File
    16784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16785 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16786 r = self.subregion(step, subregion) 
    16787 File
    16788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16789 packages/chimerax/map/volume.py", line 1558, in subregion 
    16790 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16791 AttributeError: 'NoneType' object has no attribute 'size' 
    16792  
    16793 AttributeError: 'NoneType' object has no attribute 'size' 
    16794  
    16795 File
    16796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16797 packages/chimerax/map/volume.py", line 1558, in subregion 
    16798 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16799  
    16800 See log for complete Python traceback. 
    16801  
    16802 Traceback (most recent call last): 
    16803 File
    16804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16805 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16806 drew = self.draw_new_frame() 
    16807 File
    16808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16809 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16810 surface.update_clip_caps(view) 
    16811 File
    16812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16813 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16814 subdivision = settings.clipping_cap_subdivision) 
    16815 File
    16816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16817 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16818 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16819 File
    16820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16821 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16822 cm.set_geometry(varray, narray, tarray) 
    16823 File
    16824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16825 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16826 arv() 
    16827 File
    16828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16829 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16830 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16831 File
    16832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16833 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16834 s.vertex_colors = self.vertex_colors(report_stats) 
    16835 File
    16836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16837 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16838 values, outside = self.volume_values() 
    16839 File
    16840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16841 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16842 return self.offset_values(v, n, tf) 
    16843 File
    16844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16845 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16846 values, outside = self.vertex_values(v, xf) 
    16847 File
    16848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16849 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16850 out_of_bounds_list = True) 
    16851 File
    16852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16853 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16854 subregion, step) 
    16855 File
    16856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16857 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16858 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16859 File
    16860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16861 packages/chimerax/map/volume.py", line 1243, in
    16862 matrix_indices_to_xyz_transform 
    16863 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16864 File
    16865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16866 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16867 r = self.subregion(step, subregion) 
    16868 File
    16869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16870 packages/chimerax/map/volume.py", line 1558, in subregion 
    16871 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16872 AttributeError: 'NoneType' object has no attribute 'size' 
    16873  
    16874 AttributeError: 'NoneType' object has no attribute 'size' 
    16875  
    16876 File
    16877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16878 packages/chimerax/map/volume.py", line 1558, in subregion 
    16879 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16880  
    16881 See log for complete Python traceback. 
    16882  
    16883 Traceback (most recent call last): 
    16884 File
    16885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16886 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16887 drew = self.draw_new_frame() 
    16888 File
    16889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16890 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16891 surface.update_clip_caps(view) 
    16892 File
    16893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16894 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16895 subdivision = settings.clipping_cap_subdivision) 
    16896 File
    16897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16898 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16899 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16900 File
    16901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16902 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16903 cm.set_geometry(varray, narray, tarray) 
    16904 File
    16905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16906 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16907 arv() 
    16908 File
    16909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16910 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16911 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16912 File
    16913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16914 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16915 s.vertex_colors = self.vertex_colors(report_stats) 
    16916 File
    16917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16918 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    16919 values, outside = self.volume_values() 
    16920 File
    16921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16922 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    16923 return self.offset_values(v, n, tf) 
    16924 File
    16925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16926 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    16927 values, outside = self.vertex_values(v, xf) 
    16928 File
    16929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16930 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    16931 out_of_bounds_list = True) 
    16932 File
    16933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16934 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    16935 subregion, step) 
    16936 File
    16937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16938 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    16939 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    16940 File
    16941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16942 packages/chimerax/map/volume.py", line 1243, in
    16943 matrix_indices_to_xyz_transform 
    16944 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    16945 File
    16946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16947 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    16948 r = self.subregion(step, subregion) 
    16949 File
    16950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16951 packages/chimerax/map/volume.py", line 1558, in subregion 
    16952 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16953 AttributeError: 'NoneType' object has no attribute 'size' 
    16954  
    16955 AttributeError: 'NoneType' object has no attribute 'size' 
    16956  
    16957 File
    16958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16959 packages/chimerax/map/volume.py", line 1558, in subregion 
    16960 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    16961  
    16962 See log for complete Python traceback. 
    16963  
    16964 Traceback (most recent call last): 
    16965 File
    16966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16967 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    16968 drew = self.draw_new_frame() 
    16969 File
    16970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16971 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    16972 surface.update_clip_caps(view) 
    16973 File
    16974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16975 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    16976 subdivision = settings.clipping_cap_subdivision) 
    16977 File
    16978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16979 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    16980 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    16981 File
    16982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16983 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    16984 cm.set_geometry(varray, narray, tarray) 
    16985 File
    16986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16987 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    16988 arv() 
    16989 File
    16990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16991 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    16992 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    16993 File
    16994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16995 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    16996 s.vertex_colors = self.vertex_colors(report_stats) 
    16997 File
    16998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    16999 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17000 values, outside = self.volume_values() 
    17001 File
    17002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17003 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17004 return self.offset_values(v, n, tf) 
    17005 File
    17006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17007 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17008 values, outside = self.vertex_values(v, xf) 
    17009 File
    17010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17011 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17012 out_of_bounds_list = True) 
    17013 File
    17014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17015 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17016 subregion, step) 
    17017 File
    17018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17019 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17020 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17021 File
    17022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17023 packages/chimerax/map/volume.py", line 1243, in
    17024 matrix_indices_to_xyz_transform 
    17025 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17026 File
    17027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17028 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17029 r = self.subregion(step, subregion) 
    17030 File
    17031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17032 packages/chimerax/map/volume.py", line 1558, in subregion 
    17033 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17034 AttributeError: 'NoneType' object has no attribute 'size' 
    17035  
    17036 AttributeError: 'NoneType' object has no attribute 'size' 
    17037  
    17038 File
    17039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17040 packages/chimerax/map/volume.py", line 1558, in subregion 
    17041 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17042  
    17043 See log for complete Python traceback. 
    17044  
    17045 Traceback (most recent call last): 
    17046 File
    17047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17048 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17049 drew = self.draw_new_frame() 
    17050 File
    17051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17052 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17053 surface.update_clip_caps(view) 
    17054 File
    17055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17056 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17057 subdivision = settings.clipping_cap_subdivision) 
    17058 File
    17059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17060 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17061 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17062 File
    17063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17064 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17065 cm.set_geometry(varray, narray, tarray) 
    17066 File
    17067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17068 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17069 arv() 
    17070 File
    17071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17072 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17073 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17074 File
    17075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17076 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17077 s.vertex_colors = self.vertex_colors(report_stats) 
    17078 File
    17079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17080 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17081 values, outside = self.volume_values() 
    17082 File
    17083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17084 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17085 return self.offset_values(v, n, tf) 
    17086 File
    17087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17088 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17089 values, outside = self.vertex_values(v, xf) 
    17090 File
    17091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17092 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17093 out_of_bounds_list = True) 
    17094 File
    17095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17096 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17097 subregion, step) 
    17098 File
    17099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17100 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17101 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17102 File
    17103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17104 packages/chimerax/map/volume.py", line 1243, in
    17105 matrix_indices_to_xyz_transform 
    17106 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17107 File
    17108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17109 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17110 r = self.subregion(step, subregion) 
    17111 File
    17112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17113 packages/chimerax/map/volume.py", line 1558, in subregion 
    17114 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17115 AttributeError: 'NoneType' object has no attribute 'size' 
    17116  
    17117 AttributeError: 'NoneType' object has no attribute 'size' 
    17118  
    17119 File
    17120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17121 packages/chimerax/map/volume.py", line 1558, in subregion 
    17122 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17123  
    17124 See log for complete Python traceback. 
    17125  
    17126 Traceback (most recent call last): 
    17127 File
    17128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17129 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17130 drew = self.draw_new_frame() 
    17131 File
    17132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17133 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17134 surface.update_clip_caps(view) 
    17135 File
    17136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17137 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17138 subdivision = settings.clipping_cap_subdivision) 
    17139 File
    17140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17141 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17142 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17143 File
    17144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17145 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17146 cm.set_geometry(varray, narray, tarray) 
    17147 File
    17148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17149 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17150 arv() 
    17151 File
    17152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17153 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17154 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17155 File
    17156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17157 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17158 s.vertex_colors = self.vertex_colors(report_stats) 
    17159 File
    17160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17161 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17162 values, outside = self.volume_values() 
    17163 File
    17164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17165 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17166 return self.offset_values(v, n, tf) 
    17167 File
    17168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17169 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17170 values, outside = self.vertex_values(v, xf) 
    17171 File
    17172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17173 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17174 out_of_bounds_list = True) 
    17175 File
    17176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17177 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17178 subregion, step) 
    17179 File
    17180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17181 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17182 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17183 File
    17184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17185 packages/chimerax/map/volume.py", line 1243, in
    17186 matrix_indices_to_xyz_transform 
    17187 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17188 File
    17189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17190 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17191 r = self.subregion(step, subregion) 
    17192 File
    17193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17194 packages/chimerax/map/volume.py", line 1558, in subregion 
    17195 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17196 AttributeError: 'NoneType' object has no attribute 'size' 
    17197  
    17198 AttributeError: 'NoneType' object has no attribute 'size' 
    17199  
    17200 File
    17201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17202 packages/chimerax/map/volume.py", line 1558, in subregion 
    17203 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17204  
    17205 See log for complete Python traceback. 
    17206  
    17207 Traceback (most recent call last): 
    17208 File
    17209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17210 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17211 drew = self.draw_new_frame() 
    17212 File
    17213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17214 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17215 surface.update_clip_caps(view) 
    17216 File
    17217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17218 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17219 subdivision = settings.clipping_cap_subdivision) 
    17220 File
    17221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17222 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17223 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17224 File
    17225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17226 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17227 cm.set_geometry(varray, narray, tarray) 
    17228 File
    17229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17230 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17231 arv() 
    17232 File
    17233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17234 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17235 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17236 File
    17237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17238 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17239 s.vertex_colors = self.vertex_colors(report_stats) 
    17240 File
    17241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17242 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17243 values, outside = self.volume_values() 
    17244 File
    17245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17246 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17247 return self.offset_values(v, n, tf) 
    17248 File
    17249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17250 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17251 values, outside = self.vertex_values(v, xf) 
    17252 File
    17253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17254 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17255 out_of_bounds_list = True) 
    17256 File
    17257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17258 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17259 subregion, step) 
    17260 File
    17261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17262 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17263 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17264 File
    17265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17266 packages/chimerax/map/volume.py", line 1243, in
    17267 matrix_indices_to_xyz_transform 
    17268 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17269 File
    17270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17271 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17272 r = self.subregion(step, subregion) 
    17273 File
    17274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17275 packages/chimerax/map/volume.py", line 1558, in subregion 
    17276 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17277 AttributeError: 'NoneType' object has no attribute 'size' 
    17278  
    17279 AttributeError: 'NoneType' object has no attribute 'size' 
    17280  
    17281 File
    17282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17283 packages/chimerax/map/volume.py", line 1558, in subregion 
    17284 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17285  
    17286 See log for complete Python traceback. 
    17287  
    17288 Traceback (most recent call last): 
    17289 File
    17290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17291 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17292 drew = self.draw_new_frame() 
    17293 File
    17294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17295 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17296 surface.update_clip_caps(view) 
    17297 File
    17298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17299 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17300 subdivision = settings.clipping_cap_subdivision) 
    17301 File
    17302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17303 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17304 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17305 File
    17306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17307 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17308 cm.set_geometry(varray, narray, tarray) 
    17309 File
    17310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17311 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17312 arv() 
    17313 File
    17314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17315 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17316 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17317 File
    17318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17319 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17320 s.vertex_colors = self.vertex_colors(report_stats) 
    17321 File
    17322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17323 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17324 values, outside = self.volume_values() 
    17325 File
    17326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17327 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17328 return self.offset_values(v, n, tf) 
    17329 File
    17330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17331 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17332 values, outside = self.vertex_values(v, xf) 
    17333 File
    17334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17335 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17336 out_of_bounds_list = True) 
    17337 File
    17338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17339 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17340 subregion, step) 
    17341 File
    17342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17343 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17344 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17345 File
    17346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17347 packages/chimerax/map/volume.py", line 1243, in
    17348 matrix_indices_to_xyz_transform 
    17349 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17350 File
    17351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17352 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17353 r = self.subregion(step, subregion) 
    17354 File
    17355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17356 packages/chimerax/map/volume.py", line 1558, in subregion 
    17357 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17358 AttributeError: 'NoneType' object has no attribute 'size' 
    17359  
    17360 AttributeError: 'NoneType' object has no attribute 'size' 
    17361  
    17362 File
    17363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17364 packages/chimerax/map/volume.py", line 1558, in subregion 
    17365 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17366  
    17367 See log for complete Python traceback. 
    17368  
    17369 Traceback (most recent call last): 
    17370 File
    17371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17372 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17373 drew = self.draw_new_frame() 
    17374 File
    17375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17376 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17377 surface.update_clip_caps(view) 
    17378 File
    17379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17380 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17381 subdivision = settings.clipping_cap_subdivision) 
    17382 File
    17383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17384 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17385 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17386 File
    17387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17388 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17389 cm.set_geometry(varray, narray, tarray) 
    17390 File
    17391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17392 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17393 arv() 
    17394 File
    17395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17396 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17397 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17398 File
    17399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17400 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17401 s.vertex_colors = self.vertex_colors(report_stats) 
    17402 File
    17403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17404 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17405 values, outside = self.volume_values() 
    17406 File
    17407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17408 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17409 return self.offset_values(v, n, tf) 
    17410 File
    17411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17412 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17413 values, outside = self.vertex_values(v, xf) 
    17414 File
    17415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17416 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17417 out_of_bounds_list = True) 
    17418 File
    17419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17420 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17421 subregion, step) 
    17422 File
    17423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17424 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17425 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17426 File
    17427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17428 packages/chimerax/map/volume.py", line 1243, in
    17429 matrix_indices_to_xyz_transform 
    17430 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17431 File
    17432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17433 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17434 r = self.subregion(step, subregion) 
    17435 File
    17436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17437 packages/chimerax/map/volume.py", line 1558, in subregion 
    17438 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17439 AttributeError: 'NoneType' object has no attribute 'size' 
    17440  
    17441 AttributeError: 'NoneType' object has no attribute 'size' 
    17442  
    17443 File
    17444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17445 packages/chimerax/map/volume.py", line 1558, in subregion 
    17446 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17447  
    17448 See log for complete Python traceback. 
    17449  
    17450 Traceback (most recent call last): 
    17451 File
    17452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17453 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17454 drew = self.draw_new_frame() 
    17455 File
    17456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17457 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17458 surface.update_clip_caps(view) 
    17459 File
    17460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17461 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17462 subdivision = settings.clipping_cap_subdivision) 
    17463 File
    17464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17465 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17466 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17467 File
    17468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17469 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17470 cm.set_geometry(varray, narray, tarray) 
    17471 File
    17472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17473 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17474 arv() 
    17475 File
    17476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17477 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17478 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17479 File
    17480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17481 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17482 s.vertex_colors = self.vertex_colors(report_stats) 
    17483 File
    17484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17485 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17486 values, outside = self.volume_values() 
    17487 File
    17488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17489 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17490 return self.offset_values(v, n, tf) 
    17491 File
    17492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17493 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17494 values, outside = self.vertex_values(v, xf) 
    17495 File
    17496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17497 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17498 out_of_bounds_list = True) 
    17499 File
    17500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17501 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17502 subregion, step) 
    17503 File
    17504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17505 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17506 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17507 File
    17508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17509 packages/chimerax/map/volume.py", line 1243, in
    17510 matrix_indices_to_xyz_transform 
    17511 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17512 File
    17513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17514 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17515 r = self.subregion(step, subregion) 
    17516 File
    17517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17518 packages/chimerax/map/volume.py", line 1558, in subregion 
    17519 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17520 AttributeError: 'NoneType' object has no attribute 'size' 
    17521  
    17522 AttributeError: 'NoneType' object has no attribute 'size' 
    17523  
    17524 File
    17525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17526 packages/chimerax/map/volume.py", line 1558, in subregion 
    17527 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17528  
    17529 See log for complete Python traceback. 
    17530  
    17531 Traceback (most recent call last): 
    17532 File
    17533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17534 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17535 drew = self.draw_new_frame() 
    17536 File
    17537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17538 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17539 surface.update_clip_caps(view) 
    17540 File
    17541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17542 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17543 subdivision = settings.clipping_cap_subdivision) 
    17544 File
    17545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17546 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17547 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17548 File
    17549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17550 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17551 cm.set_geometry(varray, narray, tarray) 
    17552 File
    17553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17554 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17555 arv() 
    17556 File
    17557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17558 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17559 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17560 File
    17561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17562 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17563 s.vertex_colors = self.vertex_colors(report_stats) 
    17564 File
    17565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17566 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17567 values, outside = self.volume_values() 
    17568 File
    17569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17570 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17571 return self.offset_values(v, n, tf) 
    17572 File
    17573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17574 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17575 values, outside = self.vertex_values(v, xf) 
    17576 File
    17577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17578 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17579 out_of_bounds_list = True) 
    17580 File
    17581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17582 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17583 subregion, step) 
    17584 File
    17585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17586 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17587 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17588 File
    17589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17590 packages/chimerax/map/volume.py", line 1243, in
    17591 matrix_indices_to_xyz_transform 
    17592 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17593 File
    17594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17595 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17596 r = self.subregion(step, subregion) 
    17597 File
    17598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17599 packages/chimerax/map/volume.py", line 1558, in subregion 
    17600 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17601 AttributeError: 'NoneType' object has no attribute 'size' 
    17602  
    17603 AttributeError: 'NoneType' object has no attribute 'size' 
    17604  
    17605 File
    17606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17607 packages/chimerax/map/volume.py", line 1558, in subregion 
    17608 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17609  
    17610 See log for complete Python traceback. 
    17611  
    17612 Traceback (most recent call last): 
    17613 File
    17614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17615 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17616 drew = self.draw_new_frame() 
    17617 File
    17618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17619 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17620 surface.update_clip_caps(view) 
    17621 File
    17622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17623 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17624 subdivision = settings.clipping_cap_subdivision) 
    17625 File
    17626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17627 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17628 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17629 File
    17630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17631 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17632 cm.set_geometry(varray, narray, tarray) 
    17633 File
    17634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17635 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17636 arv() 
    17637 File
    17638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17639 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17640 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17641 File
    17642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17643 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17644 s.vertex_colors = self.vertex_colors(report_stats) 
    17645 File
    17646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17647 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17648 values, outside = self.volume_values() 
    17649 File
    17650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17651 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17652 return self.offset_values(v, n, tf) 
    17653 File
    17654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17655 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17656 values, outside = self.vertex_values(v, xf) 
    17657 File
    17658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17659 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17660 out_of_bounds_list = True) 
    17661 File
    17662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17663 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17664 subregion, step) 
    17665 File
    17666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17667 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17668 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17669 File
    17670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17671 packages/chimerax/map/volume.py", line 1243, in
    17672 matrix_indices_to_xyz_transform 
    17673 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17674 File
    17675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17676 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17677 r = self.subregion(step, subregion) 
    17678 File
    17679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17680 packages/chimerax/map/volume.py", line 1558, in subregion 
    17681 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17682 AttributeError: 'NoneType' object has no attribute 'size' 
    17683  
    17684 AttributeError: 'NoneType' object has no attribute 'size' 
    17685  
    17686 File
    17687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17688 packages/chimerax/map/volume.py", line 1558, in subregion 
    17689 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17690  
    17691 See log for complete Python traceback. 
    17692  
    17693 Traceback (most recent call last): 
    17694 File
    17695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17696 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17697 drew = self.draw_new_frame() 
    17698 File
    17699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17700 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17701 surface.update_clip_caps(view) 
    17702 File
    17703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17704 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17705 subdivision = settings.clipping_cap_subdivision) 
    17706 File
    17707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17708 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17709 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17710 File
    17711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17712 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17713 cm.set_geometry(varray, narray, tarray) 
    17714 File
    17715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17716 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17717 arv() 
    17718 File
    17719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17720 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17721 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17722 File
    17723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17724 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17725 s.vertex_colors = self.vertex_colors(report_stats) 
    17726 File
    17727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17728 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17729 values, outside = self.volume_values() 
    17730 File
    17731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17732 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17733 return self.offset_values(v, n, tf) 
    17734 File
    17735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17736 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17737 values, outside = self.vertex_values(v, xf) 
    17738 File
    17739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17740 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17741 out_of_bounds_list = True) 
    17742 File
    17743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17744 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17745 subregion, step) 
    17746 File
    17747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17748 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17749 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17750 File
    17751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17752 packages/chimerax/map/volume.py", line 1243, in
    17753 matrix_indices_to_xyz_transform 
    17754 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17755 File
    17756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17757 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17758 r = self.subregion(step, subregion) 
    17759 File
    17760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17761 packages/chimerax/map/volume.py", line 1558, in subregion 
    17762 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17763 AttributeError: 'NoneType' object has no attribute 'size' 
    17764  
    17765 AttributeError: 'NoneType' object has no attribute 'size' 
    17766  
    17767 File
    17768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17769 packages/chimerax/map/volume.py", line 1558, in subregion 
    17770 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17771  
    17772 See log for complete Python traceback. 
    17773  
    17774 Traceback (most recent call last): 
    17775 File
    17776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17777 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17778 drew = self.draw_new_frame() 
    17779 File
    17780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17781 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17782 surface.update_clip_caps(view) 
    17783 File
    17784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17785 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17786 subdivision = settings.clipping_cap_subdivision) 
    17787 File
    17788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17789 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17790 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17791 File
    17792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17793 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17794 cm.set_geometry(varray, narray, tarray) 
    17795 File
    17796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17797 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17798 arv() 
    17799 File
    17800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17801 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17802 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17803 File
    17804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17805 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17806 s.vertex_colors = self.vertex_colors(report_stats) 
    17807 File
    17808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17809 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17810 values, outside = self.volume_values() 
    17811 File
    17812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17813 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17814 return self.offset_values(v, n, tf) 
    17815 File
    17816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17817 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17818 values, outside = self.vertex_values(v, xf) 
    17819 File
    17820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17821 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17822 out_of_bounds_list = True) 
    17823 File
    17824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17825 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17826 subregion, step) 
    17827 File
    17828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17829 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17830 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17831 File
    17832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17833 packages/chimerax/map/volume.py", line 1243, in
    17834 matrix_indices_to_xyz_transform 
    17835 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17836 File
    17837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17838 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17839 r = self.subregion(step, subregion) 
    17840 File
    17841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17842 packages/chimerax/map/volume.py", line 1558, in subregion 
    17843 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17844 AttributeError: 'NoneType' object has no attribute 'size' 
    17845  
    17846 AttributeError: 'NoneType' object has no attribute 'size' 
    17847  
    17848 File
    17849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17850 packages/chimerax/map/volume.py", line 1558, in subregion 
    17851 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17852  
    17853 See log for complete Python traceback. 
    17854  
    17855 Traceback (most recent call last): 
    17856 File
    17857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17858 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17859 drew = self.draw_new_frame() 
    17860 File
    17861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17862 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17863 surface.update_clip_caps(view) 
    17864 File
    17865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17866 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17867 subdivision = settings.clipping_cap_subdivision) 
    17868 File
    17869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17870 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17871 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17872 File
    17873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17874 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17875 cm.set_geometry(varray, narray, tarray) 
    17876 File
    17877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17878 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17879 arv() 
    17880 File
    17881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17882 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17883 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17884 File
    17885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17886 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17887 s.vertex_colors = self.vertex_colors(report_stats) 
    17888 File
    17889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17890 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17891 values, outside = self.volume_values() 
    17892 File
    17893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17894 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17895 return self.offset_values(v, n, tf) 
    17896 File
    17897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17898 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17899 values, outside = self.vertex_values(v, xf) 
    17900 File
    17901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17902 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17903 out_of_bounds_list = True) 
    17904 File
    17905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17906 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17907 subregion, step) 
    17908 File
    17909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17910 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17911 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17912 File
    17913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17914 packages/chimerax/map/volume.py", line 1243, in
    17915 matrix_indices_to_xyz_transform 
    17916 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17917 File
    17918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17919 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    17920 r = self.subregion(step, subregion) 
    17921 File
    17922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17923 packages/chimerax/map/volume.py", line 1558, in subregion 
    17924 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17925 AttributeError: 'NoneType' object has no attribute 'size' 
    17926  
    17927 AttributeError: 'NoneType' object has no attribute 'size' 
    17928  
    17929 File
    17930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17931 packages/chimerax/map/volume.py", line 1558, in subregion 
    17932 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    17933  
    17934 See log for complete Python traceback. 
    17935  
    17936 Traceback (most recent call last): 
    17937 File
    17938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17939 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    17940 drew = self.draw_new_frame() 
    17941 File
    17942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17943 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    17944 surface.update_clip_caps(view) 
    17945 File
    17946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17947 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    17948 subdivision = settings.clipping_cap_subdivision) 
    17949 File
    17950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17951 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    17952 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    17953 File
    17954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17955 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    17956 cm.set_geometry(varray, narray, tarray) 
    17957 File
    17958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17959 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    17960 arv() 
    17961 File
    17962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17963 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    17964 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    17965 File
    17966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17967 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    17968 s.vertex_colors = self.vertex_colors(report_stats) 
    17969 File
    17970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17971 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    17972 values, outside = self.volume_values() 
    17973 File
    17974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17975 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    17976 return self.offset_values(v, n, tf) 
    17977 File
    17978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17979 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    17980 values, outside = self.vertex_values(v, xf) 
    17981 File
    17982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17983 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    17984 out_of_bounds_list = True) 
    17985 File
    17986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17987 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    17988 subregion, step) 
    17989 File
    17990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17991 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    17992 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    17993 File
    17994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    17995 packages/chimerax/map/volume.py", line 1243, in
    17996 matrix_indices_to_xyz_transform 
    17997 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    17998 File
    17999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18000 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18001 r = self.subregion(step, subregion) 
    18002 File
    18003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18004 packages/chimerax/map/volume.py", line 1558, in subregion 
    18005 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18006 AttributeError: 'NoneType' object has no attribute 'size' 
    18007  
    18008 AttributeError: 'NoneType' object has no attribute 'size' 
    18009  
    18010 File
    18011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18012 packages/chimerax/map/volume.py", line 1558, in subregion 
    18013 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18014  
    18015 See log for complete Python traceback. 
    18016  
    18017 Traceback (most recent call last): 
    18018 File
    18019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18020 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18021 drew = self.draw_new_frame() 
    18022 File
    18023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18024 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18025 surface.update_clip_caps(view) 
    18026 File
    18027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18028 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18029 subdivision = settings.clipping_cap_subdivision) 
    18030 File
    18031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18032 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18033 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18034 File
    18035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18036 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18037 cm.set_geometry(varray, narray, tarray) 
    18038 File
    18039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18040 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18041 arv() 
    18042 File
    18043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18044 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18045 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18046 File
    18047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18048 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18049 s.vertex_colors = self.vertex_colors(report_stats) 
    18050 File
    18051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18052 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18053 values, outside = self.volume_values() 
    18054 File
    18055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18056 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18057 return self.offset_values(v, n, tf) 
    18058 File
    18059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18060 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18061 values, outside = self.vertex_values(v, xf) 
    18062 File
    18063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18064 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18065 out_of_bounds_list = True) 
    18066 File
    18067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18068 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18069 subregion, step) 
    18070 File
    18071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18072 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18073 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18074 File
    18075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18076 packages/chimerax/map/volume.py", line 1243, in
    18077 matrix_indices_to_xyz_transform 
    18078 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18079 File
    18080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18081 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18082 r = self.subregion(step, subregion) 
    18083 File
    18084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18085 packages/chimerax/map/volume.py", line 1558, in subregion 
    18086 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18087 AttributeError: 'NoneType' object has no attribute 'size' 
    18088  
    18089 AttributeError: 'NoneType' object has no attribute 'size' 
    18090  
    18091 File
    18092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18093 packages/chimerax/map/volume.py", line 1558, in subregion 
    18094 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18095  
    18096 See log for complete Python traceback. 
    18097  
    18098 Traceback (most recent call last): 
    18099 File
    18100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18101 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18102 drew = self.draw_new_frame() 
    18103 File
    18104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18105 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18106 surface.update_clip_caps(view) 
    18107 File
    18108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18109 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18110 subdivision = settings.clipping_cap_subdivision) 
    18111 File
    18112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18113 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18114 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18115 File
    18116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18117 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18118 cm.set_geometry(varray, narray, tarray) 
    18119 File
    18120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18121 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18122 arv() 
    18123 File
    18124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18125 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18126 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18127 File
    18128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18129 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18130 s.vertex_colors = self.vertex_colors(report_stats) 
    18131 File
    18132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18133 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18134 values, outside = self.volume_values() 
    18135 File
    18136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18137 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18138 return self.offset_values(v, n, tf) 
    18139 File
    18140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18141 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18142 values, outside = self.vertex_values(v, xf) 
    18143 File
    18144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18145 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18146 out_of_bounds_list = True) 
    18147 File
    18148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18149 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18150 subregion, step) 
    18151 File
    18152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18153 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18154 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18155 File
    18156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18157 packages/chimerax/map/volume.py", line 1243, in
    18158 matrix_indices_to_xyz_transform 
    18159 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18160 File
    18161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18162 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18163 r = self.subregion(step, subregion) 
    18164 File
    18165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18166 packages/chimerax/map/volume.py", line 1558, in subregion 
    18167 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18168 AttributeError: 'NoneType' object has no attribute 'size' 
    18169  
    18170 AttributeError: 'NoneType' object has no attribute 'size' 
    18171  
    18172 File
    18173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18174 packages/chimerax/map/volume.py", line 1558, in subregion 
    18175 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18176  
    18177 See log for complete Python traceback. 
    18178  
    18179 Traceback (most recent call last): 
    18180 File
    18181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18182 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18183 drew = self.draw_new_frame() 
    18184 File
    18185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18186 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18187 surface.update_clip_caps(view) 
    18188 File
    18189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18190 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18191 subdivision = settings.clipping_cap_subdivision) 
    18192 File
    18193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18194 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18195 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18196 File
    18197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18198 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18199 cm.set_geometry(varray, narray, tarray) 
    18200 File
    18201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18202 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18203 arv() 
    18204 File
    18205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18206 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18207 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18208 File
    18209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18210 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18211 s.vertex_colors = self.vertex_colors(report_stats) 
    18212 File
    18213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18214 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18215 values, outside = self.volume_values() 
    18216 File
    18217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18218 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18219 return self.offset_values(v, n, tf) 
    18220 File
    18221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18222 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18223 values, outside = self.vertex_values(v, xf) 
    18224 File
    18225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18226 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18227 out_of_bounds_list = True) 
    18228 File
    18229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18230 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18231 subregion, step) 
    18232 File
    18233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18234 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18235 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18236 File
    18237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18238 packages/chimerax/map/volume.py", line 1243, in
    18239 matrix_indices_to_xyz_transform 
    18240 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18241 File
    18242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18243 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18244 r = self.subregion(step, subregion) 
    18245 File
    18246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18247 packages/chimerax/map/volume.py", line 1558, in subregion 
    18248 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18249 AttributeError: 'NoneType' object has no attribute 'size' 
    18250  
    18251 AttributeError: 'NoneType' object has no attribute 'size' 
    18252  
    18253 File
    18254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18255 packages/chimerax/map/volume.py", line 1558, in subregion 
    18256 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18257  
    18258 See log for complete Python traceback. 
    18259  
    18260 Traceback (most recent call last): 
    18261 File
    18262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18263 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18264 drew = self.draw_new_frame() 
    18265 File
    18266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18267 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18268 surface.update_clip_caps(view) 
    18269 File
    18270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18271 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18272 subdivision = settings.clipping_cap_subdivision) 
    18273 File
    18274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18275 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18276 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18277 File
    18278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18279 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18280 cm.set_geometry(varray, narray, tarray) 
    18281 File
    18282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18283 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18284 arv() 
    18285 File
    18286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18287 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18288 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18289 File
    18290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18291 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18292 s.vertex_colors = self.vertex_colors(report_stats) 
    18293 File
    18294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18295 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18296 values, outside = self.volume_values() 
    18297 File
    18298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18299 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18300 return self.offset_values(v, n, tf) 
    18301 File
    18302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18303 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18304 values, outside = self.vertex_values(v, xf) 
    18305 File
    18306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18307 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18308 out_of_bounds_list = True) 
    18309 File
    18310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18311 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18312 subregion, step) 
    18313 File
    18314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18315 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18316 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18317 File
    18318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18319 packages/chimerax/map/volume.py", line 1243, in
    18320 matrix_indices_to_xyz_transform 
    18321 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18322 File
    18323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18324 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18325 r = self.subregion(step, subregion) 
    18326 File
    18327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18328 packages/chimerax/map/volume.py", line 1558, in subregion 
    18329 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18330 AttributeError: 'NoneType' object has no attribute 'size' 
    18331  
    18332 AttributeError: 'NoneType' object has no attribute 'size' 
    18333  
    18334 File
    18335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18336 packages/chimerax/map/volume.py", line 1558, in subregion 
    18337 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18338  
    18339 See log for complete Python traceback. 
    18340  
    18341 Traceback (most recent call last): 
    18342 File
    18343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18344 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18345 drew = self.draw_new_frame() 
    18346 File
    18347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18348 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18349 surface.update_clip_caps(view) 
    18350 File
    18351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18352 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18353 subdivision = settings.clipping_cap_subdivision) 
    18354 File
    18355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18356 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18357 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18358 File
    18359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18360 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18361 cm.set_geometry(varray, narray, tarray) 
    18362 File
    18363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18364 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18365 arv() 
    18366 File
    18367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18368 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18369 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18370 File
    18371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18372 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18373 s.vertex_colors = self.vertex_colors(report_stats) 
    18374 File
    18375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18376 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18377 values, outside = self.volume_values() 
    18378 File
    18379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18380 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18381 return self.offset_values(v, n, tf) 
    18382 File
    18383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18384 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18385 values, outside = self.vertex_values(v, xf) 
    18386 File
    18387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18388 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18389 out_of_bounds_list = True) 
    18390 File
    18391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18392 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18393 subregion, step) 
    18394 File
    18395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18396 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18397 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18398 File
    18399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18400 packages/chimerax/map/volume.py", line 1243, in
    18401 matrix_indices_to_xyz_transform 
    18402 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18403 File
    18404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18405 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18406 r = self.subregion(step, subregion) 
    18407 File
    18408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18409 packages/chimerax/map/volume.py", line 1558, in subregion 
    18410 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18411 AttributeError: 'NoneType' object has no attribute 'size' 
    18412  
    18413 AttributeError: 'NoneType' object has no attribute 'size' 
    18414  
    18415 File
    18416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18417 packages/chimerax/map/volume.py", line 1558, in subregion 
    18418 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18419  
    18420 See log for complete Python traceback. 
    18421  
    18422 Traceback (most recent call last): 
    18423 File
    18424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18425 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18426 drew = self.draw_new_frame() 
    18427 File
    18428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18429 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18430 surface.update_clip_caps(view) 
    18431 File
    18432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18433 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18434 subdivision = settings.clipping_cap_subdivision) 
    18435 File
    18436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18437 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18438 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18439 File
    18440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18441 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18442 cm.set_geometry(varray, narray, tarray) 
    18443 File
    18444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18445 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18446 arv() 
    18447 File
    18448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18449 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18450 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18451 File
    18452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18453 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18454 s.vertex_colors = self.vertex_colors(report_stats) 
    18455 File
    18456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18457 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18458 values, outside = self.volume_values() 
    18459 File
    18460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18461 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18462 return self.offset_values(v, n, tf) 
    18463 File
    18464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18465 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18466 values, outside = self.vertex_values(v, xf) 
    18467 File
    18468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18469 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18470 out_of_bounds_list = True) 
    18471 File
    18472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18473 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18474 subregion, step) 
    18475 File
    18476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18477 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18478 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18479 File
    18480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18481 packages/chimerax/map/volume.py", line 1243, in
    18482 matrix_indices_to_xyz_transform 
    18483 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18484 File
    18485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18486 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18487 r = self.subregion(step, subregion) 
    18488 File
    18489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18490 packages/chimerax/map/volume.py", line 1558, in subregion 
    18491 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18492 AttributeError: 'NoneType' object has no attribute 'size' 
    18493  
    18494 AttributeError: 'NoneType' object has no attribute 'size' 
    18495  
    18496 File
    18497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18498 packages/chimerax/map/volume.py", line 1558, in subregion 
    18499 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18500  
    18501 See log for complete Python traceback. 
    18502  
    18503 Traceback (most recent call last): 
    18504 File
    18505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18506 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18507 drew = self.draw_new_frame() 
    18508 File
    18509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18510 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18511 surface.update_clip_caps(view) 
    18512 File
    18513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18514 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18515 subdivision = settings.clipping_cap_subdivision) 
    18516 File
    18517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18518 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18519 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18520 File
    18521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18522 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18523 cm.set_geometry(varray, narray, tarray) 
    18524 File
    18525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18526 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18527 arv() 
    18528 File
    18529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18530 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18531 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18532 File
    18533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18534 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18535 s.vertex_colors = self.vertex_colors(report_stats) 
    18536 File
    18537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18538 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18539 values, outside = self.volume_values() 
    18540 File
    18541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18542 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18543 return self.offset_values(v, n, tf) 
    18544 File
    18545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18546 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18547 values, outside = self.vertex_values(v, xf) 
    18548 File
    18549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18550 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18551 out_of_bounds_list = True) 
    18552 File
    18553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18554 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18555 subregion, step) 
    18556 File
    18557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18558 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18559 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18560 File
    18561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18562 packages/chimerax/map/volume.py", line 1243, in
    18563 matrix_indices_to_xyz_transform 
    18564 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18565 File
    18566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18567 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18568 r = self.subregion(step, subregion) 
    18569 File
    18570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18571 packages/chimerax/map/volume.py", line 1558, in subregion 
    18572 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18573 AttributeError: 'NoneType' object has no attribute 'size' 
    18574  
    18575 AttributeError: 'NoneType' object has no attribute 'size' 
    18576  
    18577 File
    18578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18579 packages/chimerax/map/volume.py", line 1558, in subregion 
    18580 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18581  
    18582 See log for complete Python traceback. 
    18583  
    18584 Traceback (most recent call last): 
    18585 File
    18586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18587 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18588 drew = self.draw_new_frame() 
    18589 File
    18590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18591 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18592 surface.update_clip_caps(view) 
    18593 File
    18594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18595 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18596 subdivision = settings.clipping_cap_subdivision) 
    18597 File
    18598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18599 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18600 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18601 File
    18602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18603 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18604 cm.set_geometry(varray, narray, tarray) 
    18605 File
    18606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18607 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18608 arv() 
    18609 File
    18610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18611 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18612 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18613 File
    18614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18615 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18616 s.vertex_colors = self.vertex_colors(report_stats) 
    18617 File
    18618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18619 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18620 values, outside = self.volume_values() 
    18621 File
    18622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18623 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18624 return self.offset_values(v, n, tf) 
    18625 File
    18626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18627 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18628 values, outside = self.vertex_values(v, xf) 
    18629 File
    18630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18631 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18632 out_of_bounds_list = True) 
    18633 File
    18634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18635 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18636 subregion, step) 
    18637 File
    18638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18639 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18640 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18641 File
    18642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18643 packages/chimerax/map/volume.py", line 1243, in
    18644 matrix_indices_to_xyz_transform 
    18645 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18646 File
    18647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18648 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18649 r = self.subregion(step, subregion) 
    18650 File
    18651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18652 packages/chimerax/map/volume.py", line 1558, in subregion 
    18653 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18654 AttributeError: 'NoneType' object has no attribute 'size' 
    18655  
    18656 AttributeError: 'NoneType' object has no attribute 'size' 
    18657  
    18658 File
    18659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18660 packages/chimerax/map/volume.py", line 1558, in subregion 
    18661 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18662  
    18663 See log for complete Python traceback. 
    18664  
    18665 Traceback (most recent call last): 
    18666 File
    18667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18668 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18669 drew = self.draw_new_frame() 
    18670 File
    18671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18672 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18673 surface.update_clip_caps(view) 
    18674 File
    18675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18676 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18677 subdivision = settings.clipping_cap_subdivision) 
    18678 File
    18679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18680 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18681 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18682 File
    18683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18684 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18685 cm.set_geometry(varray, narray, tarray) 
    18686 File
    18687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18688 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18689 arv() 
    18690 File
    18691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18692 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18693 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18694 File
    18695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18696 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18697 s.vertex_colors = self.vertex_colors(report_stats) 
    18698 File
    18699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18700 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18701 values, outside = self.volume_values() 
    18702 File
    18703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18704 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18705 return self.offset_values(v, n, tf) 
    18706 File
    18707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18708 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18709 values, outside = self.vertex_values(v, xf) 
    18710 File
    18711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18712 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18713 out_of_bounds_list = True) 
    18714 File
    18715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18716 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18717 subregion, step) 
    18718 File
    18719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18720 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18721 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18722 File
    18723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18724 packages/chimerax/map/volume.py", line 1243, in
    18725 matrix_indices_to_xyz_transform 
    18726 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18727 File
    18728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18729 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18730 r = self.subregion(step, subregion) 
    18731 File
    18732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18733 packages/chimerax/map/volume.py", line 1558, in subregion 
    18734 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18735 AttributeError: 'NoneType' object has no attribute 'size' 
    18736  
    18737 AttributeError: 'NoneType' object has no attribute 'size' 
    18738  
    18739 File
    18740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18741 packages/chimerax/map/volume.py", line 1558, in subregion 
    18742 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18743  
    18744 See log for complete Python traceback. 
    18745  
    18746 Traceback (most recent call last): 
    18747 File
    18748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18749 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18750 drew = self.draw_new_frame() 
    18751 File
    18752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18753 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18754 surface.update_clip_caps(view) 
    18755 File
    18756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18757 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18758 subdivision = settings.clipping_cap_subdivision) 
    18759 File
    18760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18761 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18762 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18763 File
    18764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18765 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18766 cm.set_geometry(varray, narray, tarray) 
    18767 File
    18768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18769 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18770 arv() 
    18771 File
    18772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18773 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18774 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18775 File
    18776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18777 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18778 s.vertex_colors = self.vertex_colors(report_stats) 
    18779 File
    18780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18781 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18782 values, outside = self.volume_values() 
    18783 File
    18784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18785 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18786 return self.offset_values(v, n, tf) 
    18787 File
    18788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18789 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18790 values, outside = self.vertex_values(v, xf) 
    18791 File
    18792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18793 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18794 out_of_bounds_list = True) 
    18795 File
    18796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18797 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18798 subregion, step) 
    18799 File
    18800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18801 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18802 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18803 File
    18804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18805 packages/chimerax/map/volume.py", line 1243, in
    18806 matrix_indices_to_xyz_transform 
    18807 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18808 File
    18809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18810 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18811 r = self.subregion(step, subregion) 
    18812 File
    18813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18814 packages/chimerax/map/volume.py", line 1558, in subregion 
    18815 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18816 AttributeError: 'NoneType' object has no attribute 'size' 
    18817  
    18818 AttributeError: 'NoneType' object has no attribute 'size' 
    18819  
    18820 File
    18821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18822 packages/chimerax/map/volume.py", line 1558, in subregion 
    18823 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18824  
    18825 See log for complete Python traceback. 
    18826  
    18827 Traceback (most recent call last): 
    18828 File
    18829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18830 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18831 drew = self.draw_new_frame() 
    18832 File
    18833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18834 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18835 surface.update_clip_caps(view) 
    18836 File
    18837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18838 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18839 subdivision = settings.clipping_cap_subdivision) 
    18840 File
    18841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18842 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18843 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18844 File
    18845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18846 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18847 cm.set_geometry(varray, narray, tarray) 
    18848 File
    18849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18850 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18851 arv() 
    18852 File
    18853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18854 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18855 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18856 File
    18857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18858 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18859 s.vertex_colors = self.vertex_colors(report_stats) 
    18860 File
    18861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18862 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18863 values, outside = self.volume_values() 
    18864 File
    18865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18866 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18867 return self.offset_values(v, n, tf) 
    18868 File
    18869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18870 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18871 values, outside = self.vertex_values(v, xf) 
    18872 File
    18873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18874 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18875 out_of_bounds_list = True) 
    18876 File
    18877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18878 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18879 subregion, step) 
    18880 File
    18881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18882 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18883 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18884 File
    18885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18886 packages/chimerax/map/volume.py", line 1243, in
    18887 matrix_indices_to_xyz_transform 
    18888 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18889 File
    18890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18891 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18892 r = self.subregion(step, subregion) 
    18893 File
    18894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18895 packages/chimerax/map/volume.py", line 1558, in subregion 
    18896 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18897 AttributeError: 'NoneType' object has no attribute 'size' 
    18898  
    18899 AttributeError: 'NoneType' object has no attribute 'size' 
    18900  
    18901 File
    18902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18903 packages/chimerax/map/volume.py", line 1558, in subregion 
    18904 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18905  
    18906 See log for complete Python traceback. 
    18907  
    18908 Traceback (most recent call last): 
    18909 File
    18910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18911 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18912 drew = self.draw_new_frame() 
    18913 File
    18914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18915 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18916 surface.update_clip_caps(view) 
    18917 File
    18918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18919 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    18920 subdivision = settings.clipping_cap_subdivision) 
    18921 File
    18922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18923 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    18924 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    18925 File
    18926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18927 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    18928 cm.set_geometry(varray, narray, tarray) 
    18929 File
    18930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18931 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    18932 arv() 
    18933 File
    18934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18935 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    18936 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    18937 File
    18938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18939 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    18940 s.vertex_colors = self.vertex_colors(report_stats) 
    18941 File
    18942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18943 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    18944 values, outside = self.volume_values() 
    18945 File
    18946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18947 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    18948 return self.offset_values(v, n, tf) 
    18949 File
    18950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18951 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    18952 values, outside = self.vertex_values(v, xf) 
    18953 File
    18954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18955 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    18956 out_of_bounds_list = True) 
    18957 File
    18958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18959 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    18960 subregion, step) 
    18961 File
    18962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18963 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    18964 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    18965 File
    18966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18967 packages/chimerax/map/volume.py", line 1243, in
    18968 matrix_indices_to_xyz_transform 
    18969 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    18970 File
    18971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18972 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    18973 r = self.subregion(step, subregion) 
    18974 File
    18975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18976 packages/chimerax/map/volume.py", line 1558, in subregion 
    18977 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18978 AttributeError: 'NoneType' object has no attribute 'size' 
    18979  
    18980 AttributeError: 'NoneType' object has no attribute 'size' 
    18981  
    18982 File
    18983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18984 packages/chimerax/map/volume.py", line 1558, in subregion 
    18985 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    18986  
    18987 See log for complete Python traceback. 
    18988  
    18989 Traceback (most recent call last): 
    18990 File
    18991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18992 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    18993 drew = self.draw_new_frame() 
    18994 File
    18995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    18996 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    18997 surface.update_clip_caps(view) 
    18998 File
    18999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19000 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19001 subdivision = settings.clipping_cap_subdivision) 
    19002 File
    19003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19004 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19005 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19006 File
    19007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19008 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19009 cm.set_geometry(varray, narray, tarray) 
    19010 File
    19011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19012 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19013 arv() 
    19014 File
    19015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19016 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19017 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19018 File
    19019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19020 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19021 s.vertex_colors = self.vertex_colors(report_stats) 
    19022 File
    19023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19024 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19025 values, outside = self.volume_values() 
    19026 File
    19027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19028 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19029 return self.offset_values(v, n, tf) 
    19030 File
    19031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19032 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19033 values, outside = self.vertex_values(v, xf) 
    19034 File
    19035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19036 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19037 out_of_bounds_list = True) 
    19038 File
    19039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19040 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19041 subregion, step) 
    19042 File
    19043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19044 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19045 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19046 File
    19047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19048 packages/chimerax/map/volume.py", line 1243, in
    19049 matrix_indices_to_xyz_transform 
    19050 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19051 File
    19052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19053 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19054 r = self.subregion(step, subregion) 
    19055 File
    19056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19057 packages/chimerax/map/volume.py", line 1558, in subregion 
    19058 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19059 AttributeError: 'NoneType' object has no attribute 'size' 
    19060  
    19061 AttributeError: 'NoneType' object has no attribute 'size' 
    19062  
    19063 File
    19064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19065 packages/chimerax/map/volume.py", line 1558, in subregion 
    19066 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19067  
    19068 See log for complete Python traceback. 
    19069  
    19070 Traceback (most recent call last): 
    19071 File
    19072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19073 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19074 drew = self.draw_new_frame() 
    19075 File
    19076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19077 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19078 surface.update_clip_caps(view) 
    19079 File
    19080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19081 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19082 subdivision = settings.clipping_cap_subdivision) 
    19083 File
    19084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19085 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19086 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19087 File
    19088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19089 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19090 cm.set_geometry(varray, narray, tarray) 
    19091 File
    19092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19093 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19094 arv() 
    19095 File
    19096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19097 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19098 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19099 File
    19100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19101 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19102 s.vertex_colors = self.vertex_colors(report_stats) 
    19103 File
    19104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19105 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19106 values, outside = self.volume_values() 
    19107 File
    19108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19109 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19110 return self.offset_values(v, n, tf) 
    19111 File
    19112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19113 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19114 values, outside = self.vertex_values(v, xf) 
    19115 File
    19116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19117 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19118 out_of_bounds_list = True) 
    19119 File
    19120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19121 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19122 subregion, step) 
    19123 File
    19124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19125 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19126 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19127 File
    19128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19129 packages/chimerax/map/volume.py", line 1243, in
    19130 matrix_indices_to_xyz_transform 
    19131 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19132 File
    19133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19134 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19135 r = self.subregion(step, subregion) 
    19136 File
    19137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19138 packages/chimerax/map/volume.py", line 1558, in subregion 
    19139 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19140 AttributeError: 'NoneType' object has no attribute 'size' 
    19141  
    19142 AttributeError: 'NoneType' object has no attribute 'size' 
    19143  
    19144 File
    19145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19146 packages/chimerax/map/volume.py", line 1558, in subregion 
    19147 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19148  
    19149 See log for complete Python traceback. 
    19150  
    19151 Traceback (most recent call last): 
    19152 File
    19153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19154 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19155 drew = self.draw_new_frame() 
    19156 File
    19157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19158 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19159 surface.update_clip_caps(view) 
    19160 File
    19161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19162 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19163 subdivision = settings.clipping_cap_subdivision) 
    19164 File
    19165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19166 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19167 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19168 File
    19169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19170 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19171 cm.set_geometry(varray, narray, tarray) 
    19172 File
    19173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19174 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19175 arv() 
    19176 File
    19177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19178 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19179 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19180 File
    19181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19182 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19183 s.vertex_colors = self.vertex_colors(report_stats) 
    19184 File
    19185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19186 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19187 values, outside = self.volume_values() 
    19188 File
    19189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19190 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19191 return self.offset_values(v, n, tf) 
    19192 File
    19193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19194 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19195 values, outside = self.vertex_values(v, xf) 
    19196 File
    19197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19198 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19199 out_of_bounds_list = True) 
    19200 File
    19201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19202 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19203 subregion, step) 
    19204 File
    19205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19206 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19207 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19208 File
    19209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19210 packages/chimerax/map/volume.py", line 1243, in
    19211 matrix_indices_to_xyz_transform 
    19212 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19213 File
    19214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19215 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19216 r = self.subregion(step, subregion) 
    19217 File
    19218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19219 packages/chimerax/map/volume.py", line 1558, in subregion 
    19220 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19221 AttributeError: 'NoneType' object has no attribute 'size' 
    19222  
    19223 AttributeError: 'NoneType' object has no attribute 'size' 
    19224  
    19225 File
    19226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19227 packages/chimerax/map/volume.py", line 1558, in subregion 
    19228 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19229  
    19230 See log for complete Python traceback. 
    19231  
    19232 Traceback (most recent call last): 
    19233 File
    19234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19235 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19236 drew = self.draw_new_frame() 
    19237 File
    19238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19239 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19240 surface.update_clip_caps(view) 
    19241 File
    19242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19243 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19244 subdivision = settings.clipping_cap_subdivision) 
    19245 File
    19246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19247 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19248 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19249 File
    19250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19251 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19252 cm.set_geometry(varray, narray, tarray) 
    19253 File
    19254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19255 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19256 arv() 
    19257 File
    19258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19259 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19260 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19261 File
    19262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19263 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19264 s.vertex_colors = self.vertex_colors(report_stats) 
    19265 File
    19266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19267 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19268 values, outside = self.volume_values() 
    19269 File
    19270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19271 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19272 return self.offset_values(v, n, tf) 
    19273 File
    19274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19275 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19276 values, outside = self.vertex_values(v, xf) 
    19277 File
    19278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19279 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19280 out_of_bounds_list = True) 
    19281 File
    19282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19283 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19284 subregion, step) 
    19285 File
    19286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19287 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19288 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19289 File
    19290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19291 packages/chimerax/map/volume.py", line 1243, in
    19292 matrix_indices_to_xyz_transform 
    19293 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19294 File
    19295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19296 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19297 r = self.subregion(step, subregion) 
    19298 File
    19299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19300 packages/chimerax/map/volume.py", line 1558, in subregion 
    19301 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19302 AttributeError: 'NoneType' object has no attribute 'size' 
    19303  
    19304 AttributeError: 'NoneType' object has no attribute 'size' 
    19305  
    19306 File
    19307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19308 packages/chimerax/map/volume.py", line 1558, in subregion 
    19309 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19310  
    19311 See log for complete Python traceback. 
    19312  
    19313 Traceback (most recent call last): 
    19314 File
    19315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19316 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19317 drew = self.draw_new_frame() 
    19318 File
    19319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19320 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19321 surface.update_clip_caps(view) 
    19322 File
    19323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19324 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19325 subdivision = settings.clipping_cap_subdivision) 
    19326 File
    19327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19328 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19329 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19330 File
    19331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19332 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19333 cm.set_geometry(varray, narray, tarray) 
    19334 File
    19335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19336 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19337 arv() 
    19338 File
    19339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19340 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19341 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19342 File
    19343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19344 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19345 s.vertex_colors = self.vertex_colors(report_stats) 
    19346 File
    19347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19348 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19349 values, outside = self.volume_values() 
    19350 File
    19351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19352 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19353 return self.offset_values(v, n, tf) 
    19354 File
    19355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19356 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19357 values, outside = self.vertex_values(v, xf) 
    19358 File
    19359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19360 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19361 out_of_bounds_list = True) 
    19362 File
    19363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19364 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19365 subregion, step) 
    19366 File
    19367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19368 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19369 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19370 File
    19371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19372 packages/chimerax/map/volume.py", line 1243, in
    19373 matrix_indices_to_xyz_transform 
    19374 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19375 File
    19376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19377 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19378 r = self.subregion(step, subregion) 
    19379 File
    19380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19381 packages/chimerax/map/volume.py", line 1558, in subregion 
    19382 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19383 AttributeError: 'NoneType' object has no attribute 'size' 
    19384  
    19385 AttributeError: 'NoneType' object has no attribute 'size' 
    19386  
    19387 File
    19388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19389 packages/chimerax/map/volume.py", line 1558, in subregion 
    19390 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19391  
    19392 See log for complete Python traceback. 
    19393  
    19394 Traceback (most recent call last): 
    19395 File
    19396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19397 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19398 drew = self.draw_new_frame() 
    19399 File
    19400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19401 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19402 surface.update_clip_caps(view) 
    19403 File
    19404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19405 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19406 subdivision = settings.clipping_cap_subdivision) 
    19407 File
    19408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19409 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19410 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19411 File
    19412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19413 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19414 cm.set_geometry(varray, narray, tarray) 
    19415 File
    19416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19417 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19418 arv() 
    19419 File
    19420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19421 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19422 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19423 File
    19424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19425 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19426 s.vertex_colors = self.vertex_colors(report_stats) 
    19427 File
    19428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19429 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19430 values, outside = self.volume_values() 
    19431 File
    19432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19433 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19434 return self.offset_values(v, n, tf) 
    19435 File
    19436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19437 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19438 values, outside = self.vertex_values(v, xf) 
    19439 File
    19440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19441 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19442 out_of_bounds_list = True) 
    19443 File
    19444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19445 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19446 subregion, step) 
    19447 File
    19448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19449 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19450 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19451 File
    19452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19453 packages/chimerax/map/volume.py", line 1243, in
    19454 matrix_indices_to_xyz_transform 
    19455 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19456 File
    19457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19458 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19459 r = self.subregion(step, subregion) 
    19460 File
    19461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19462 packages/chimerax/map/volume.py", line 1558, in subregion 
    19463 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19464 AttributeError: 'NoneType' object has no attribute 'size' 
    19465  
    19466 AttributeError: 'NoneType' object has no attribute 'size' 
    19467  
    19468 File
    19469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19470 packages/chimerax/map/volume.py", line 1558, in subregion 
    19471 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19472  
    19473 See log for complete Python traceback. 
    19474  
    19475 Traceback (most recent call last): 
    19476 File
    19477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19478 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19479 drew = self.draw_new_frame() 
    19480 File
    19481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19482 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19483 surface.update_clip_caps(view) 
    19484 File
    19485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19486 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19487 subdivision = settings.clipping_cap_subdivision) 
    19488 File
    19489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19490 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19491 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19492 File
    19493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19494 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19495 cm.set_geometry(varray, narray, tarray) 
    19496 File
    19497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19498 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19499 arv() 
    19500 File
    19501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19502 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19503 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19504 File
    19505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19506 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19507 s.vertex_colors = self.vertex_colors(report_stats) 
    19508 File
    19509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19510 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19511 values, outside = self.volume_values() 
    19512 File
    19513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19514 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19515 return self.offset_values(v, n, tf) 
    19516 File
    19517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19518 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19519 values, outside = self.vertex_values(v, xf) 
    19520 File
    19521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19522 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19523 out_of_bounds_list = True) 
    19524 File
    19525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19526 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19527 subregion, step) 
    19528 File
    19529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19530 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19531 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19532 File
    19533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19534 packages/chimerax/map/volume.py", line 1243, in
    19535 matrix_indices_to_xyz_transform 
    19536 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19537 File
    19538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19539 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19540 r = self.subregion(step, subregion) 
    19541 File
    19542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19543 packages/chimerax/map/volume.py", line 1558, in subregion 
    19544 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19545 AttributeError: 'NoneType' object has no attribute 'size' 
    19546  
    19547 AttributeError: 'NoneType' object has no attribute 'size' 
    19548  
    19549 File
    19550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19551 packages/chimerax/map/volume.py", line 1558, in subregion 
    19552 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19553  
    19554 See log for complete Python traceback. 
    19555  
    19556 Traceback (most recent call last): 
    19557 File
    19558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19559 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19560 drew = self.draw_new_frame() 
    19561 File
    19562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19563 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19564 surface.update_clip_caps(view) 
    19565 File
    19566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19567 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19568 subdivision = settings.clipping_cap_subdivision) 
    19569 File
    19570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19571 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19572 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19573 File
    19574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19575 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19576 cm.set_geometry(varray, narray, tarray) 
    19577 File
    19578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19579 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19580 arv() 
    19581 File
    19582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19583 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19584 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19585 File
    19586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19587 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19588 s.vertex_colors = self.vertex_colors(report_stats) 
    19589 File
    19590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19591 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19592 values, outside = self.volume_values() 
    19593 File
    19594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19595 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19596 return self.offset_values(v, n, tf) 
    19597 File
    19598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19599 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19600 values, outside = self.vertex_values(v, xf) 
    19601 File
    19602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19603 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19604 out_of_bounds_list = True) 
    19605 File
    19606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19607 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19608 subregion, step) 
    19609 File
    19610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19611 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19612 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19613 File
    19614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19615 packages/chimerax/map/volume.py", line 1243, in
    19616 matrix_indices_to_xyz_transform 
    19617 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19618 File
    19619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19620 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19621 r = self.subregion(step, subregion) 
    19622 File
    19623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19624 packages/chimerax/map/volume.py", line 1558, in subregion 
    19625 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19626 AttributeError: 'NoneType' object has no attribute 'size' 
    19627  
    19628 AttributeError: 'NoneType' object has no attribute 'size' 
    19629  
    19630 File
    19631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19632 packages/chimerax/map/volume.py", line 1558, in subregion 
    19633 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19634  
    19635 See log for complete Python traceback. 
    19636  
    19637 Traceback (most recent call last): 
    19638 File
    19639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19640 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19641 drew = self.draw_new_frame() 
    19642 File
    19643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19644 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19645 surface.update_clip_caps(view) 
    19646 File
    19647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19648 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19649 subdivision = settings.clipping_cap_subdivision) 
    19650 File
    19651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19652 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19653 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19654 File
    19655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19656 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19657 cm.set_geometry(varray, narray, tarray) 
    19658 File
    19659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19660 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19661 arv() 
    19662 File
    19663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19664 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19665 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19666 File
    19667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19668 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19669 s.vertex_colors = self.vertex_colors(report_stats) 
    19670 File
    19671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19672 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19673 values, outside = self.volume_values() 
    19674 File
    19675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19676 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19677 return self.offset_values(v, n, tf) 
    19678 File
    19679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19680 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19681 values, outside = self.vertex_values(v, xf) 
    19682 File
    19683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19684 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19685 out_of_bounds_list = True) 
    19686 File
    19687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19688 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19689 subregion, step) 
    19690 File
    19691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19692 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19693 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19694 File
    19695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19696 packages/chimerax/map/volume.py", line 1243, in
    19697 matrix_indices_to_xyz_transform 
    19698 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19699 File
    19700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19701 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19702 r = self.subregion(step, subregion) 
    19703 File
    19704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19705 packages/chimerax/map/volume.py", line 1558, in subregion 
    19706 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19707 AttributeError: 'NoneType' object has no attribute 'size' 
    19708  
    19709 AttributeError: 'NoneType' object has no attribute 'size' 
    19710  
    19711 File
    19712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19713 packages/chimerax/map/volume.py", line 1558, in subregion 
    19714 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19715  
    19716 See log for complete Python traceback. 
    19717  
    19718 Traceback (most recent call last): 
    19719 File
    19720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19721 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19722 drew = self.draw_new_frame() 
    19723 File
    19724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19725 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19726 surface.update_clip_caps(view) 
    19727 File
    19728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19729 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19730 subdivision = settings.clipping_cap_subdivision) 
    19731 File
    19732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19733 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19734 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19735 File
    19736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19737 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19738 cm.set_geometry(varray, narray, tarray) 
    19739 File
    19740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19741 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19742 arv() 
    19743 File
    19744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19745 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19746 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19747 File
    19748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19749 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19750 s.vertex_colors = self.vertex_colors(report_stats) 
    19751 File
    19752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19753 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19754 values, outside = self.volume_values() 
    19755 File
    19756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19757 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19758 return self.offset_values(v, n, tf) 
    19759 File
    19760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19761 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19762 values, outside = self.vertex_values(v, xf) 
    19763 File
    19764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19765 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19766 out_of_bounds_list = True) 
    19767 File
    19768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19769 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19770 subregion, step) 
    19771 File
    19772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19773 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19774 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19775 File
    19776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19777 packages/chimerax/map/volume.py", line 1243, in
    19778 matrix_indices_to_xyz_transform 
    19779 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19780 File
    19781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19782 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19783 r = self.subregion(step, subregion) 
    19784 File
    19785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19786 packages/chimerax/map/volume.py", line 1558, in subregion 
    19787 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19788 AttributeError: 'NoneType' object has no attribute 'size' 
    19789  
    19790 AttributeError: 'NoneType' object has no attribute 'size' 
    19791  
    19792 File
    19793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19794 packages/chimerax/map/volume.py", line 1558, in subregion 
    19795 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19796  
    19797 See log for complete Python traceback. 
    19798  
    19799 Traceback (most recent call last): 
    19800 File
    19801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19802 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19803 drew = self.draw_new_frame() 
    19804 File
    19805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19806 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19807 surface.update_clip_caps(view) 
    19808 File
    19809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19810 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19811 subdivision = settings.clipping_cap_subdivision) 
    19812 File
    19813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19814 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19815 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19816 File
    19817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19818 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19819 cm.set_geometry(varray, narray, tarray) 
    19820 File
    19821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19822 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19823 arv() 
    19824 File
    19825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19826 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19827 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19828 File
    19829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19830 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19831 s.vertex_colors = self.vertex_colors(report_stats) 
    19832 File
    19833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19834 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19835 values, outside = self.volume_values() 
    19836 File
    19837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19838 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19839 return self.offset_values(v, n, tf) 
    19840 File
    19841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19842 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19843 values, outside = self.vertex_values(v, xf) 
    19844 File
    19845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19846 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19847 out_of_bounds_list = True) 
    19848 File
    19849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19850 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19851 subregion, step) 
    19852 File
    19853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19854 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19855 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19856 File
    19857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19858 packages/chimerax/map/volume.py", line 1243, in
    19859 matrix_indices_to_xyz_transform 
    19860 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19861 File
    19862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19863 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19864 r = self.subregion(step, subregion) 
    19865 File
    19866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19867 packages/chimerax/map/volume.py", line 1558, in subregion 
    19868 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19869 AttributeError: 'NoneType' object has no attribute 'size' 
    19870  
    19871 AttributeError: 'NoneType' object has no attribute 'size' 
    19872  
    19873 File
    19874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19875 packages/chimerax/map/volume.py", line 1558, in subregion 
    19876 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19877  
    19878 See log for complete Python traceback. 
    19879  
    19880 Traceback (most recent call last): 
    19881 File
    19882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19883 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19884 drew = self.draw_new_frame() 
    19885 File
    19886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19887 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19888 surface.update_clip_caps(view) 
    19889 File
    19890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19891 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19892 subdivision = settings.clipping_cap_subdivision) 
    19893 File
    19894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19895 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19896 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19897 File
    19898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19899 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19900 cm.set_geometry(varray, narray, tarray) 
    19901 File
    19902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19903 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19904 arv() 
    19905 File
    19906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19907 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19908 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19909 File
    19910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19911 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19912 s.vertex_colors = self.vertex_colors(report_stats) 
    19913 File
    19914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19915 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19916 values, outside = self.volume_values() 
    19917 File
    19918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19919 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    19920 return self.offset_values(v, n, tf) 
    19921 File
    19922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19923 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    19924 values, outside = self.vertex_values(v, xf) 
    19925 File
    19926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19927 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    19928 out_of_bounds_list = True) 
    19929 File
    19930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19931 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    19932 subregion, step) 
    19933 File
    19934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19935 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    19936 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    19937 File
    19938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19939 packages/chimerax/map/volume.py", line 1243, in
    19940 matrix_indices_to_xyz_transform 
    19941 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    19942 File
    19943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19944 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    19945 r = self.subregion(step, subregion) 
    19946 File
    19947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19948 packages/chimerax/map/volume.py", line 1558, in subregion 
    19949 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19950 AttributeError: 'NoneType' object has no attribute 'size' 
    19951  
    19952 AttributeError: 'NoneType' object has no attribute 'size' 
    19953  
    19954 File
    19955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19956 packages/chimerax/map/volume.py", line 1558, in subregion 
    19957 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    19958  
    19959 See log for complete Python traceback. 
    19960  
    19961 Traceback (most recent call last): 
    19962 File
    19963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19964 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    19965 drew = self.draw_new_frame() 
    19966 File
    19967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19968 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    19969 surface.update_clip_caps(view) 
    19970 File
    19971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19972 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    19973 subdivision = settings.clipping_cap_subdivision) 
    19974 File
    19975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19976 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    19977 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    19978 File
    19979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19980 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    19981 cm.set_geometry(varray, narray, tarray) 
    19982 File
    19983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19984 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    19985 arv() 
    19986 File
    19987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19988 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    19989 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    19990 File
    19991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19992 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    19993 s.vertex_colors = self.vertex_colors(report_stats) 
    19994 File
    19995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    19996 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    19997 values, outside = self.volume_values() 
    19998 File
    19999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20000 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20001 return self.offset_values(v, n, tf) 
    20002 File
    20003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20004 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20005 values, outside = self.vertex_values(v, xf) 
    20006 File
    20007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20008 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20009 out_of_bounds_list = True) 
    20010 File
    20011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20012 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20013 subregion, step) 
    20014 File
    20015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20016 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20017 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20018 File
    20019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20020 packages/chimerax/map/volume.py", line 1243, in
    20021 matrix_indices_to_xyz_transform 
    20022 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20023 File
    20024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20025 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20026 r = self.subregion(step, subregion) 
    20027 File
    20028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20029 packages/chimerax/map/volume.py", line 1558, in subregion 
    20030 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20031 AttributeError: 'NoneType' object has no attribute 'size' 
    20032  
    20033 AttributeError: 'NoneType' object has no attribute 'size' 
    20034  
    20035 File
    20036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20037 packages/chimerax/map/volume.py", line 1558, in subregion 
    20038 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20039  
    20040 See log for complete Python traceback. 
    20041  
    20042 Traceback (most recent call last): 
    20043 File
    20044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20045 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20046 drew = self.draw_new_frame() 
    20047 File
    20048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20049 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20050 surface.update_clip_caps(view) 
    20051 File
    20052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20053 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20054 subdivision = settings.clipping_cap_subdivision) 
    20055 File
    20056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20057 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20058 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20059 File
    20060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20061 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20062 cm.set_geometry(varray, narray, tarray) 
    20063 File
    20064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20065 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20066 arv() 
    20067 File
    20068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20069 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20070 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20071 File
    20072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20073 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20074 s.vertex_colors = self.vertex_colors(report_stats) 
    20075 File
    20076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20077 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20078 values, outside = self.volume_values() 
    20079 File
    20080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20081 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20082 return self.offset_values(v, n, tf) 
    20083 File
    20084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20085 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20086 values, outside = self.vertex_values(v, xf) 
    20087 File
    20088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20089 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20090 out_of_bounds_list = True) 
    20091 File
    20092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20093 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20094 subregion, step) 
    20095 File
    20096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20097 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20098 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20099 File
    20100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20101 packages/chimerax/map/volume.py", line 1243, in
    20102 matrix_indices_to_xyz_transform 
    20103 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20104 File
    20105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20106 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20107 r = self.subregion(step, subregion) 
    20108 File
    20109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20110 packages/chimerax/map/volume.py", line 1558, in subregion 
    20111 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20112 AttributeError: 'NoneType' object has no attribute 'size' 
    20113  
    20114 AttributeError: 'NoneType' object has no attribute 'size' 
    20115  
    20116 File
    20117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20118 packages/chimerax/map/volume.py", line 1558, in subregion 
    20119 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20120  
    20121 See log for complete Python traceback. 
    20122  
    20123 Traceback (most recent call last): 
    20124 File
    20125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20126 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20127 drew = self.draw_new_frame() 
    20128 File
    20129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20130 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20131 surface.update_clip_caps(view) 
    20132 File
    20133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20134 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20135 subdivision = settings.clipping_cap_subdivision) 
    20136 File
    20137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20138 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20139 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20140 File
    20141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20142 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20143 cm.set_geometry(varray, narray, tarray) 
    20144 File
    20145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20146 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20147 arv() 
    20148 File
    20149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20150 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20151 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20152 File
    20153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20154 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20155 s.vertex_colors = self.vertex_colors(report_stats) 
    20156 File
    20157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20158 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20159 values, outside = self.volume_values() 
    20160 File
    20161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20162 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20163 return self.offset_values(v, n, tf) 
    20164 File
    20165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20166 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20167 values, outside = self.vertex_values(v, xf) 
    20168 File
    20169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20170 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20171 out_of_bounds_list = True) 
    20172 File
    20173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20174 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20175 subregion, step) 
    20176 File
    20177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20178 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20179 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20180 File
    20181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20182 packages/chimerax/map/volume.py", line 1243, in
    20183 matrix_indices_to_xyz_transform 
    20184 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20185 File
    20186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20187 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20188 r = self.subregion(step, subregion) 
    20189 File
    20190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20191 packages/chimerax/map/volume.py", line 1558, in subregion 
    20192 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20193 AttributeError: 'NoneType' object has no attribute 'size' 
    20194  
    20195 AttributeError: 'NoneType' object has no attribute 'size' 
    20196  
    20197 File
    20198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20199 packages/chimerax/map/volume.py", line 1558, in subregion 
    20200 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20201  
    20202 See log for complete Python traceback. 
    20203  
    20204 Traceback (most recent call last): 
    20205 File
    20206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20207 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20208 drew = self.draw_new_frame() 
    20209 File
    20210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20211 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20212 surface.update_clip_caps(view) 
    20213 File
    20214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20215 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20216 subdivision = settings.clipping_cap_subdivision) 
    20217 File
    20218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20219 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20220 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20221 File
    20222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20223 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20224 cm.set_geometry(varray, narray, tarray) 
    20225 File
    20226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20227 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20228 arv() 
    20229 File
    20230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20231 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20232 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20233 File
    20234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20235 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20236 s.vertex_colors = self.vertex_colors(report_stats) 
    20237 File
    20238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20239 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20240 values, outside = self.volume_values() 
    20241 File
    20242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20243 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20244 return self.offset_values(v, n, tf) 
    20245 File
    20246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20247 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20248 values, outside = self.vertex_values(v, xf) 
    20249 File
    20250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20251 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20252 out_of_bounds_list = True) 
    20253 File
    20254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20255 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20256 subregion, step) 
    20257 File
    20258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20259 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20260 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20261 File
    20262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20263 packages/chimerax/map/volume.py", line 1243, in
    20264 matrix_indices_to_xyz_transform 
    20265 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20266 File
    20267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20268 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20269 r = self.subregion(step, subregion) 
    20270 File
    20271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20272 packages/chimerax/map/volume.py", line 1558, in subregion 
    20273 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20274 AttributeError: 'NoneType' object has no attribute 'size' 
    20275  
    20276 AttributeError: 'NoneType' object has no attribute 'size' 
    20277  
    20278 File
    20279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20280 packages/chimerax/map/volume.py", line 1558, in subregion 
    20281 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20282  
    20283 See log for complete Python traceback. 
    20284  
    20285 Traceback (most recent call last): 
    20286 File
    20287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20288 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20289 drew = self.draw_new_frame() 
    20290 File
    20291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20292 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20293 surface.update_clip_caps(view) 
    20294 File
    20295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20296 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20297 subdivision = settings.clipping_cap_subdivision) 
    20298 File
    20299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20300 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20301 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20302 File
    20303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20304 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20305 cm.set_geometry(varray, narray, tarray) 
    20306 File
    20307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20308 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20309 arv() 
    20310 File
    20311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20312 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20313 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20314 File
    20315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20316 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20317 s.vertex_colors = self.vertex_colors(report_stats) 
    20318 File
    20319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20320 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20321 values, outside = self.volume_values() 
    20322 File
    20323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20324 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20325 return self.offset_values(v, n, tf) 
    20326 File
    20327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20328 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20329 values, outside = self.vertex_values(v, xf) 
    20330 File
    20331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20332 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20333 out_of_bounds_list = True) 
    20334 File
    20335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20336 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20337 subregion, step) 
    20338 File
    20339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20340 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20341 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20342 File
    20343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20344 packages/chimerax/map/volume.py", line 1243, in
    20345 matrix_indices_to_xyz_transform 
    20346 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20347 File
    20348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20349 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20350 r = self.subregion(step, subregion) 
    20351 File
    20352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20353 packages/chimerax/map/volume.py", line 1558, in subregion 
    20354 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20355 AttributeError: 'NoneType' object has no attribute 'size' 
    20356  
    20357 AttributeError: 'NoneType' object has no attribute 'size' 
    20358  
    20359 File
    20360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20361 packages/chimerax/map/volume.py", line 1558, in subregion 
    20362 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20363  
    20364 See log for complete Python traceback. 
    20365  
    20366 Traceback (most recent call last): 
    20367 File
    20368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20369 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20370 drew = self.draw_new_frame() 
    20371 File
    20372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20373 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20374 surface.update_clip_caps(view) 
    20375 File
    20376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20377 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20378 subdivision = settings.clipping_cap_subdivision) 
    20379 File
    20380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20381 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20382 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20383 File
    20384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20385 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20386 cm.set_geometry(varray, narray, tarray) 
    20387 File
    20388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20389 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20390 arv() 
    20391 File
    20392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20393 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20394 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20395 File
    20396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20397 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20398 s.vertex_colors = self.vertex_colors(report_stats) 
    20399 File
    20400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20401 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20402 values, outside = self.volume_values() 
    20403 File
    20404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20405 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20406 return self.offset_values(v, n, tf) 
    20407 File
    20408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20409 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20410 values, outside = self.vertex_values(v, xf) 
    20411 File
    20412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20413 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20414 out_of_bounds_list = True) 
    20415 File
    20416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20417 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20418 subregion, step) 
    20419 File
    20420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20421 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20422 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20423 File
    20424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20425 packages/chimerax/map/volume.py", line 1243, in
    20426 matrix_indices_to_xyz_transform 
    20427 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20428 File
    20429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20430 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20431 r = self.subregion(step, subregion) 
    20432 File
    20433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20434 packages/chimerax/map/volume.py", line 1558, in subregion 
    20435 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20436 AttributeError: 'NoneType' object has no attribute 'size' 
    20437  
    20438 AttributeError: 'NoneType' object has no attribute 'size' 
    20439  
    20440 File
    20441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20442 packages/chimerax/map/volume.py", line 1558, in subregion 
    20443 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20444  
    20445 See log for complete Python traceback. 
    20446  
    20447 Traceback (most recent call last): 
    20448 File
    20449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20450 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20451 drew = self.draw_new_frame() 
    20452 File
    20453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20454 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20455 surface.update_clip_caps(view) 
    20456 File
    20457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20458 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20459 subdivision = settings.clipping_cap_subdivision) 
    20460 File
    20461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20462 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20463 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20464 File
    20465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20466 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20467 cm.set_geometry(varray, narray, tarray) 
    20468 File
    20469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20470 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20471 arv() 
    20472 File
    20473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20474 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20475 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20476 File
    20477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20478 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20479 s.vertex_colors = self.vertex_colors(report_stats) 
    20480 File
    20481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20482 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20483 values, outside = self.volume_values() 
    20484 File
    20485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20486 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20487 return self.offset_values(v, n, tf) 
    20488 File
    20489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20490 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20491 values, outside = self.vertex_values(v, xf) 
    20492 File
    20493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20494 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20495 out_of_bounds_list = True) 
    20496 File
    20497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20498 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20499 subregion, step) 
    20500 File
    20501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20502 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20503 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20504 File
    20505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20506 packages/chimerax/map/volume.py", line 1243, in
    20507 matrix_indices_to_xyz_transform 
    20508 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20509 File
    20510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20511 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20512 r = self.subregion(step, subregion) 
    20513 File
    20514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20515 packages/chimerax/map/volume.py", line 1558, in subregion 
    20516 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20517 AttributeError: 'NoneType' object has no attribute 'size' 
    20518  
    20519 AttributeError: 'NoneType' object has no attribute 'size' 
    20520  
    20521 File
    20522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20523 packages/chimerax/map/volume.py", line 1558, in subregion 
    20524 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20525  
    20526 See log for complete Python traceback. 
    20527  
    20528 Traceback (most recent call last): 
    20529 File
    20530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20531 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20532 drew = self.draw_new_frame() 
    20533 File
    20534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20535 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20536 surface.update_clip_caps(view) 
    20537 File
    20538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20539 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20540 subdivision = settings.clipping_cap_subdivision) 
    20541 File
    20542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20543 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20544 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20545 File
    20546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20547 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20548 cm.set_geometry(varray, narray, tarray) 
    20549 File
    20550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20551 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20552 arv() 
    20553 File
    20554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20555 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20556 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20557 File
    20558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20559 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20560 s.vertex_colors = self.vertex_colors(report_stats) 
    20561 File
    20562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20563 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20564 values, outside = self.volume_values() 
    20565 File
    20566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20567 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20568 return self.offset_values(v, n, tf) 
    20569 File
    20570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20571 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20572 values, outside = self.vertex_values(v, xf) 
    20573 File
    20574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20575 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20576 out_of_bounds_list = True) 
    20577 File
    20578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20579 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20580 subregion, step) 
    20581 File
    20582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20583 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20584 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20585 File
    20586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20587 packages/chimerax/map/volume.py", line 1243, in
    20588 matrix_indices_to_xyz_transform 
    20589 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20590 File
    20591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20592 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20593 r = self.subregion(step, subregion) 
    20594 File
    20595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20596 packages/chimerax/map/volume.py", line 1558, in subregion 
    20597 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20598 AttributeError: 'NoneType' object has no attribute 'size' 
    20599  
    20600 AttributeError: 'NoneType' object has no attribute 'size' 
    20601  
    20602 File
    20603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20604 packages/chimerax/map/volume.py", line 1558, in subregion 
    20605 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20606  
    20607 See log for complete Python traceback. 
    20608  
    20609 Traceback (most recent call last): 
    20610 File
    20611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20612 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20613 drew = self.draw_new_frame() 
    20614 File
    20615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20616 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20617 surface.update_clip_caps(view) 
    20618 File
    20619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20620 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20621 subdivision = settings.clipping_cap_subdivision) 
    20622 File
    20623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20624 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20625 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20626 File
    20627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20628 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20629 cm.set_geometry(varray, narray, tarray) 
    20630 File
    20631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20632 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20633 arv() 
    20634 File
    20635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20636 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20637 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20638 File
    20639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20640 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20641 s.vertex_colors = self.vertex_colors(report_stats) 
    20642 File
    20643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20644 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20645 values, outside = self.volume_values() 
    20646 File
    20647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20648 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20649 return self.offset_values(v, n, tf) 
    20650 File
    20651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20652 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20653 values, outside = self.vertex_values(v, xf) 
    20654 File
    20655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20656 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20657 out_of_bounds_list = True) 
    20658 File
    20659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20660 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20661 subregion, step) 
    20662 File
    20663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20664 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20665 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20666 File
    20667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20668 packages/chimerax/map/volume.py", line 1243, in
    20669 matrix_indices_to_xyz_transform 
    20670 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20671 File
    20672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20673 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20674 r = self.subregion(step, subregion) 
    20675 File
    20676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20677 packages/chimerax/map/volume.py", line 1558, in subregion 
    20678 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20679 AttributeError: 'NoneType' object has no attribute 'size' 
    20680  
    20681 AttributeError: 'NoneType' object has no attribute 'size' 
    20682  
    20683 File
    20684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20685 packages/chimerax/map/volume.py", line 1558, in subregion 
    20686 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20687  
    20688 See log for complete Python traceback. 
    20689  
    20690 Traceback (most recent call last): 
    20691 File
    20692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20693 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20694 drew = self.draw_new_frame() 
    20695 File
    20696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20697 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20698 surface.update_clip_caps(view) 
    20699 File
    20700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20701 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20702 subdivision = settings.clipping_cap_subdivision) 
    20703 File
    20704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20705 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20706 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20707 File
    20708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20709 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20710 cm.set_geometry(varray, narray, tarray) 
    20711 File
    20712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20713 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20714 arv() 
    20715 File
    20716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20717 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20718 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20719 File
    20720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20721 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20722 s.vertex_colors = self.vertex_colors(report_stats) 
    20723 File
    20724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20725 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20726 values, outside = self.volume_values() 
    20727 File
    20728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20729 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20730 return self.offset_values(v, n, tf) 
    20731 File
    20732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20733 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20734 values, outside = self.vertex_values(v, xf) 
    20735 File
    20736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20737 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20738 out_of_bounds_list = True) 
    20739 File
    20740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20741 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20742 subregion, step) 
    20743 File
    20744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20745 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20746 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20747 File
    20748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20749 packages/chimerax/map/volume.py", line 1243, in
    20750 matrix_indices_to_xyz_transform 
    20751 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20752 File
    20753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20754 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20755 r = self.subregion(step, subregion) 
    20756 File
    20757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20758 packages/chimerax/map/volume.py", line 1558, in subregion 
    20759 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20760 AttributeError: 'NoneType' object has no attribute 'size' 
    20761  
    20762 AttributeError: 'NoneType' object has no attribute 'size' 
    20763  
    20764 File
    20765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20766 packages/chimerax/map/volume.py", line 1558, in subregion 
    20767 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20768  
    20769 See log for complete Python traceback. 
    20770  
    20771 Traceback (most recent call last): 
    20772 File
    20773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20774 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20775 drew = self.draw_new_frame() 
    20776 File
    20777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20778 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20779 surface.update_clip_caps(view) 
    20780 File
    20781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20782 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20783 subdivision = settings.clipping_cap_subdivision) 
    20784 File
    20785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20786 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20787 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20788 File
    20789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20790 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20791 cm.set_geometry(varray, narray, tarray) 
    20792 File
    20793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20794 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20795 arv() 
    20796 File
    20797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20798 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20799 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20800 File
    20801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20802 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20803 s.vertex_colors = self.vertex_colors(report_stats) 
    20804 File
    20805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20806 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20807 values, outside = self.volume_values() 
    20808 File
    20809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20810 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20811 return self.offset_values(v, n, tf) 
    20812 File
    20813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20814 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20815 values, outside = self.vertex_values(v, xf) 
    20816 File
    20817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20818 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20819 out_of_bounds_list = True) 
    20820 File
    20821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20822 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20823 subregion, step) 
    20824 File
    20825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20826 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20827 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20828 File
    20829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20830 packages/chimerax/map/volume.py", line 1243, in
    20831 matrix_indices_to_xyz_transform 
    20832 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20833 File
    20834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20835 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20836 r = self.subregion(step, subregion) 
    20837 File
    20838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20839 packages/chimerax/map/volume.py", line 1558, in subregion 
    20840 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20841 AttributeError: 'NoneType' object has no attribute 'size' 
    20842  
    20843 AttributeError: 'NoneType' object has no attribute 'size' 
    20844  
    20845 File
    20846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20847 packages/chimerax/map/volume.py", line 1558, in subregion 
    20848 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20849  
    20850 See log for complete Python traceback. 
    20851  
    20852 Traceback (most recent call last): 
    20853 File
    20854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20855 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20856 drew = self.draw_new_frame() 
    20857 File
    20858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20859 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20860 surface.update_clip_caps(view) 
    20861 File
    20862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20863 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20864 subdivision = settings.clipping_cap_subdivision) 
    20865 File
    20866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20867 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20868 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20869 File
    20870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20871 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20872 cm.set_geometry(varray, narray, tarray) 
    20873 File
    20874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20875 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20876 arv() 
    20877 File
    20878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20879 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20880 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20881 File
    20882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20883 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20884 s.vertex_colors = self.vertex_colors(report_stats) 
    20885 File
    20886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20887 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20888 values, outside = self.volume_values() 
    20889 File
    20890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20891 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20892 return self.offset_values(v, n, tf) 
    20893 File
    20894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20895 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20896 values, outside = self.vertex_values(v, xf) 
    20897 File
    20898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20899 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20900 out_of_bounds_list = True) 
    20901 File
    20902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20903 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20904 subregion, step) 
    20905 File
    20906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20907 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20908 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20909 File
    20910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20911 packages/chimerax/map/volume.py", line 1243, in
    20912 matrix_indices_to_xyz_transform 
    20913 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20914 File
    20915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20916 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20917 r = self.subregion(step, subregion) 
    20918 File
    20919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20920 packages/chimerax/map/volume.py", line 1558, in subregion 
    20921 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20922 AttributeError: 'NoneType' object has no attribute 'size' 
    20923  
    20924 AttributeError: 'NoneType' object has no attribute 'size' 
    20925  
    20926 File
    20927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20928 packages/chimerax/map/volume.py", line 1558, in subregion 
    20929 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    20930  
    20931 See log for complete Python traceback. 
    20932  
    20933 Traceback (most recent call last): 
    20934 File
    20935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20936 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    20937 drew = self.draw_new_frame() 
    20938 File
    20939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20940 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    20941 surface.update_clip_caps(view) 
    20942 File
    20943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20944 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    20945 subdivision = settings.clipping_cap_subdivision) 
    20946 File
    20947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20948 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    20949 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    20950 File
    20951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20952 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    20953 cm.set_geometry(varray, narray, tarray) 
    20954 File
    20955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20956 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    20957 arv() 
    20958 File
    20959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20960 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    20961 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    20962 File
    20963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20964 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    20965 s.vertex_colors = self.vertex_colors(report_stats) 
    20966 File
    20967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20968 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    20969 values, outside = self.volume_values() 
    20970 File
    20971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20972 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    20973 return self.offset_values(v, n, tf) 
    20974 File
    20975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20976 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    20977 values, outside = self.vertex_values(v, xf) 
    20978 File
    20979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20980 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    20981 out_of_bounds_list = True) 
    20982 File
    20983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20984 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    20985 subregion, step) 
    20986 File
    20987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20988 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    20989 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    20990 File
    20991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20992 packages/chimerax/map/volume.py", line 1243, in
    20993 matrix_indices_to_xyz_transform 
    20994 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    20995 File
    20996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    20997 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    20998 r = self.subregion(step, subregion) 
    20999 File
    21000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21001 packages/chimerax/map/volume.py", line 1558, in subregion 
    21002 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21003 AttributeError: 'NoneType' object has no attribute 'size' 
    21004  
    21005 AttributeError: 'NoneType' object has no attribute 'size' 
    21006  
    21007 File
    21008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21009 packages/chimerax/map/volume.py", line 1558, in subregion 
    21010 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21011  
    21012 See log for complete Python traceback. 
    21013  
    21014 Traceback (most recent call last): 
    21015 File
    21016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21017 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21018 drew = self.draw_new_frame() 
    21019 File
    21020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21021 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21022 surface.update_clip_caps(view) 
    21023 File
    21024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21025 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21026 subdivision = settings.clipping_cap_subdivision) 
    21027 File
    21028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21029 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21030 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21031 File
    21032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21033 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21034 cm.set_geometry(varray, narray, tarray) 
    21035 File
    21036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21037 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21038 arv() 
    21039 File
    21040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21041 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21042 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21043 File
    21044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21045 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21046 s.vertex_colors = self.vertex_colors(report_stats) 
    21047 File
    21048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21049 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21050 values, outside = self.volume_values() 
    21051 File
    21052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21053 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21054 return self.offset_values(v, n, tf) 
    21055 File
    21056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21057 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21058 values, outside = self.vertex_values(v, xf) 
    21059 File
    21060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21061 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21062 out_of_bounds_list = True) 
    21063 File
    21064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21065 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21066 subregion, step) 
    21067 File
    21068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21069 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21070 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21071 File
    21072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21073 packages/chimerax/map/volume.py", line 1243, in
    21074 matrix_indices_to_xyz_transform 
    21075 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21076 File
    21077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21078 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21079 r = self.subregion(step, subregion) 
    21080 File
    21081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21082 packages/chimerax/map/volume.py", line 1558, in subregion 
    21083 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21084 AttributeError: 'NoneType' object has no attribute 'size' 
    21085  
    21086 AttributeError: 'NoneType' object has no attribute 'size' 
    21087  
    21088 File
    21089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21090 packages/chimerax/map/volume.py", line 1558, in subregion 
    21091 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21092  
    21093 See log for complete Python traceback. 
    21094  
    21095 Traceback (most recent call last): 
    21096 File
    21097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21098 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21099 drew = self.draw_new_frame() 
    21100 File
    21101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21102 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21103 surface.update_clip_caps(view) 
    21104 File
    21105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21106 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21107 subdivision = settings.clipping_cap_subdivision) 
    21108 File
    21109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21110 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21111 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21112 File
    21113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21114 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21115 cm.set_geometry(varray, narray, tarray) 
    21116 File
    21117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21118 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21119 arv() 
    21120 File
    21121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21122 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21123 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21124 File
    21125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21126 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21127 s.vertex_colors = self.vertex_colors(report_stats) 
    21128 File
    21129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21130 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21131 values, outside = self.volume_values() 
    21132 File
    21133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21134 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21135 return self.offset_values(v, n, tf) 
    21136 File
    21137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21138 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21139 values, outside = self.vertex_values(v, xf) 
    21140 File
    21141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21142 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21143 out_of_bounds_list = True) 
    21144 File
    21145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21146 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21147 subregion, step) 
    21148 File
    21149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21150 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21151 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21152 File
    21153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21154 packages/chimerax/map/volume.py", line 1243, in
    21155 matrix_indices_to_xyz_transform 
    21156 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21157 File
    21158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21159 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21160 r = self.subregion(step, subregion) 
    21161 File
    21162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21163 packages/chimerax/map/volume.py", line 1558, in subregion 
    21164 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21165 AttributeError: 'NoneType' object has no attribute 'size' 
    21166  
    21167 AttributeError: 'NoneType' object has no attribute 'size' 
    21168  
    21169 File
    21170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21171 packages/chimerax/map/volume.py", line 1558, in subregion 
    21172 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21173  
    21174 See log for complete Python traceback. 
    21175  
    21176 Traceback (most recent call last): 
    21177 File
    21178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21179 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21180 drew = self.draw_new_frame() 
    21181 File
    21182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21183 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21184 surface.update_clip_caps(view) 
    21185 File
    21186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21187 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21188 subdivision = settings.clipping_cap_subdivision) 
    21189 File
    21190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21191 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21192 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21193 File
    21194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21195 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21196 cm.set_geometry(varray, narray, tarray) 
    21197 File
    21198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21199 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21200 arv() 
    21201 File
    21202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21203 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21204 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21205 File
    21206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21207 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21208 s.vertex_colors = self.vertex_colors(report_stats) 
    21209 File
    21210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21211 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21212 values, outside = self.volume_values() 
    21213 File
    21214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21215 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21216 return self.offset_values(v, n, tf) 
    21217 File
    21218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21219 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21220 values, outside = self.vertex_values(v, xf) 
    21221 File
    21222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21223 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21224 out_of_bounds_list = True) 
    21225 File
    21226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21227 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21228 subregion, step) 
    21229 File
    21230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21231 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21232 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21233 File
    21234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21235 packages/chimerax/map/volume.py", line 1243, in
    21236 matrix_indices_to_xyz_transform 
    21237 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21238 File
    21239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21240 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21241 r = self.subregion(step, subregion) 
    21242 File
    21243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21244 packages/chimerax/map/volume.py", line 1558, in subregion 
    21245 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21246 AttributeError: 'NoneType' object has no attribute 'size' 
    21247  
    21248 AttributeError: 'NoneType' object has no attribute 'size' 
    21249  
    21250 File
    21251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21252 packages/chimerax/map/volume.py", line 1558, in subregion 
    21253 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21254  
    21255 See log for complete Python traceback. 
    21256  
    21257 Traceback (most recent call last): 
    21258 File
    21259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21260 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21261 drew = self.draw_new_frame() 
    21262 File
    21263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21264 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21265 surface.update_clip_caps(view) 
    21266 File
    21267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21268 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21269 subdivision = settings.clipping_cap_subdivision) 
    21270 File
    21271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21272 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21273 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21274 File
    21275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21276 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21277 cm.set_geometry(varray, narray, tarray) 
    21278 File
    21279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21280 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21281 arv() 
    21282 File
    21283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21284 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21285 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21286 File
    21287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21288 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21289 s.vertex_colors = self.vertex_colors(report_stats) 
    21290 File
    21291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21292 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21293 values, outside = self.volume_values() 
    21294 File
    21295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21296 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21297 return self.offset_values(v, n, tf) 
    21298 File
    21299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21300 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21301 values, outside = self.vertex_values(v, xf) 
    21302 File
    21303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21304 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21305 out_of_bounds_list = True) 
    21306 File
    21307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21308 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21309 subregion, step) 
    21310 File
    21311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21312 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21313 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21314 File
    21315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21316 packages/chimerax/map/volume.py", line 1243, in
    21317 matrix_indices_to_xyz_transform 
    21318 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21319 File
    21320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21321 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21322 r = self.subregion(step, subregion) 
    21323 File
    21324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21325 packages/chimerax/map/volume.py", line 1558, in subregion 
    21326 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21327 AttributeError: 'NoneType' object has no attribute 'size' 
    21328  
    21329 AttributeError: 'NoneType' object has no attribute 'size' 
    21330  
    21331 File
    21332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21333 packages/chimerax/map/volume.py", line 1558, in subregion 
    21334 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21335  
    21336 See log for complete Python traceback. 
    21337  
    21338 Traceback (most recent call last): 
    21339 File
    21340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21341 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21342 drew = self.draw_new_frame() 
    21343 File
    21344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21345 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21346 surface.update_clip_caps(view) 
    21347 File
    21348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21349 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21350 subdivision = settings.clipping_cap_subdivision) 
    21351 File
    21352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21353 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21354 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21355 File
    21356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21357 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21358 cm.set_geometry(varray, narray, tarray) 
    21359 File
    21360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21361 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21362 arv() 
    21363 File
    21364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21365 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21366 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21367 File
    21368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21369 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21370 s.vertex_colors = self.vertex_colors(report_stats) 
    21371 File
    21372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21373 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21374 values, outside = self.volume_values() 
    21375 File
    21376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21377 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21378 return self.offset_values(v, n, tf) 
    21379 File
    21380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21381 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21382 values, outside = self.vertex_values(v, xf) 
    21383 File
    21384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21385 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21386 out_of_bounds_list = True) 
    21387 File
    21388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21389 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21390 subregion, step) 
    21391 File
    21392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21393 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21394 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21395 File
    21396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21397 packages/chimerax/map/volume.py", line 1243, in
    21398 matrix_indices_to_xyz_transform 
    21399 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21400 File
    21401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21402 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21403 r = self.subregion(step, subregion) 
    21404 File
    21405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21406 packages/chimerax/map/volume.py", line 1558, in subregion 
    21407 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21408 AttributeError: 'NoneType' object has no attribute 'size' 
    21409  
    21410 AttributeError: 'NoneType' object has no attribute 'size' 
    21411  
    21412 File
    21413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21414 packages/chimerax/map/volume.py", line 1558, in subregion 
    21415 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21416  
    21417 See log for complete Python traceback. 
    21418  
    21419 Traceback (most recent call last): 
    21420 File
    21421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21422 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21423 drew = self.draw_new_frame() 
    21424 File
    21425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21426 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21427 surface.update_clip_caps(view) 
    21428 File
    21429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21430 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21431 subdivision = settings.clipping_cap_subdivision) 
    21432 File
    21433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21434 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21435 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21436 File
    21437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21438 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21439 cm.set_geometry(varray, narray, tarray) 
    21440 File
    21441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21442 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21443 arv() 
    21444 File
    21445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21446 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21447 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21448 File
    21449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21450 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21451 s.vertex_colors = self.vertex_colors(report_stats) 
    21452 File
    21453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21454 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21455 values, outside = self.volume_values() 
    21456 File
    21457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21458 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21459 return self.offset_values(v, n, tf) 
    21460 File
    21461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21462 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21463 values, outside = self.vertex_values(v, xf) 
    21464 File
    21465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21466 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21467 out_of_bounds_list = True) 
    21468 File
    21469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21470 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21471 subregion, step) 
    21472 File
    21473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21474 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21475 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21476 File
    21477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21478 packages/chimerax/map/volume.py", line 1243, in
    21479 matrix_indices_to_xyz_transform 
    21480 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21481 File
    21482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21483 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21484 r = self.subregion(step, subregion) 
    21485 File
    21486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21487 packages/chimerax/map/volume.py", line 1558, in subregion 
    21488 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21489 AttributeError: 'NoneType' object has no attribute 'size' 
    21490  
    21491 AttributeError: 'NoneType' object has no attribute 'size' 
    21492  
    21493 File
    21494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21495 packages/chimerax/map/volume.py", line 1558, in subregion 
    21496 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21497  
    21498 See log for complete Python traceback. 
    21499  
    21500 Traceback (most recent call last): 
    21501 File
    21502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21503 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21504 drew = self.draw_new_frame() 
    21505 File
    21506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21507 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21508 surface.update_clip_caps(view) 
    21509 File
    21510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21511 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21512 subdivision = settings.clipping_cap_subdivision) 
    21513 File
    21514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21515 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21516 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21517 File
    21518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21519 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21520 cm.set_geometry(varray, narray, tarray) 
    21521 File
    21522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21523 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21524 arv() 
    21525 File
    21526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21527 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21528 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21529 File
    21530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21531 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21532 s.vertex_colors = self.vertex_colors(report_stats) 
    21533 File
    21534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21535 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21536 values, outside = self.volume_values() 
    21537 File
    21538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21539 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21540 return self.offset_values(v, n, tf) 
    21541 File
    21542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21543 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21544 values, outside = self.vertex_values(v, xf) 
    21545 File
    21546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21547 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21548 out_of_bounds_list = True) 
    21549 File
    21550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21551 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21552 subregion, step) 
    21553 File
    21554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21555 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21556 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21557 File
    21558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21559 packages/chimerax/map/volume.py", line 1243, in
    21560 matrix_indices_to_xyz_transform 
    21561 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21562 File
    21563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21564 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21565 r = self.subregion(step, subregion) 
    21566 File
    21567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21568 packages/chimerax/map/volume.py", line 1558, in subregion 
    21569 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21570 AttributeError: 'NoneType' object has no attribute 'size' 
    21571  
    21572 AttributeError: 'NoneType' object has no attribute 'size' 
    21573  
    21574 File
    21575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21576 packages/chimerax/map/volume.py", line 1558, in subregion 
    21577 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21578  
    21579 See log for complete Python traceback. 
    21580  
    21581 Traceback (most recent call last): 
    21582 File
    21583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21584 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21585 drew = self.draw_new_frame() 
    21586 File
    21587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21588 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21589 surface.update_clip_caps(view) 
    21590 File
    21591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21592 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21593 subdivision = settings.clipping_cap_subdivision) 
    21594 File
    21595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21596 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21597 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21598 File
    21599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21600 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21601 cm.set_geometry(varray, narray, tarray) 
    21602 File
    21603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21604 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21605 arv() 
    21606 File
    21607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21608 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21609 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21610 File
    21611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21612 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21613 s.vertex_colors = self.vertex_colors(report_stats) 
    21614 File
    21615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21616 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21617 values, outside = self.volume_values() 
    21618 File
    21619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21620 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21621 return self.offset_values(v, n, tf) 
    21622 File
    21623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21624 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21625 values, outside = self.vertex_values(v, xf) 
    21626 File
    21627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21628 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21629 out_of_bounds_list = True) 
    21630 File
    21631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21632 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21633 subregion, step) 
    21634 File
    21635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21636 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21637 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21638 File
    21639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21640 packages/chimerax/map/volume.py", line 1243, in
    21641 matrix_indices_to_xyz_transform 
    21642 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21643 File
    21644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21645 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21646 r = self.subregion(step, subregion) 
    21647 File
    21648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21649 packages/chimerax/map/volume.py", line 1558, in subregion 
    21650 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21651 AttributeError: 'NoneType' object has no attribute 'size' 
    21652  
    21653 AttributeError: 'NoneType' object has no attribute 'size' 
    21654  
    21655 File
    21656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21657 packages/chimerax/map/volume.py", line 1558, in subregion 
    21658 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21659  
    21660 See log for complete Python traceback. 
    21661  
    21662 Traceback (most recent call last): 
    21663 File
    21664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21665 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21666 drew = self.draw_new_frame() 
    21667 File
    21668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21669 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21670 surface.update_clip_caps(view) 
    21671 File
    21672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21673 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21674 subdivision = settings.clipping_cap_subdivision) 
    21675 File
    21676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21677 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21678 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21679 File
    21680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21681 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21682 cm.set_geometry(varray, narray, tarray) 
    21683 File
    21684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21685 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21686 arv() 
    21687 File
    21688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21689 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21690 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21691 File
    21692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21693 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21694 s.vertex_colors = self.vertex_colors(report_stats) 
    21695 File
    21696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21697 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21698 values, outside = self.volume_values() 
    21699 File
    21700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21701 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21702 return self.offset_values(v, n, tf) 
    21703 File
    21704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21705 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21706 values, outside = self.vertex_values(v, xf) 
    21707 File
    21708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21709 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21710 out_of_bounds_list = True) 
    21711 File
    21712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21713 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21714 subregion, step) 
    21715 File
    21716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21717 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21718 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21719 File
    21720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21721 packages/chimerax/map/volume.py", line 1243, in
    21722 matrix_indices_to_xyz_transform 
    21723 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21724 File
    21725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21726 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21727 r = self.subregion(step, subregion) 
    21728 File
    21729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21730 packages/chimerax/map/volume.py", line 1558, in subregion 
    21731 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21732 AttributeError: 'NoneType' object has no attribute 'size' 
    21733  
    21734 AttributeError: 'NoneType' object has no attribute 'size' 
    21735  
    21736 File
    21737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21738 packages/chimerax/map/volume.py", line 1558, in subregion 
    21739 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21740  
    21741 See log for complete Python traceback. 
    21742  
    21743 Traceback (most recent call last): 
    21744 File
    21745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21746 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21747 drew = self.draw_new_frame() 
    21748 File
    21749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21750 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21751 surface.update_clip_caps(view) 
    21752 File
    21753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21754 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21755 subdivision = settings.clipping_cap_subdivision) 
    21756 File
    21757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21758 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21759 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21760 File
    21761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21762 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21763 cm.set_geometry(varray, narray, tarray) 
    21764 File
    21765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21766 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21767 arv() 
    21768 File
    21769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21770 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21771 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21772 File
    21773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21774 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21775 s.vertex_colors = self.vertex_colors(report_stats) 
    21776 File
    21777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21778 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21779 values, outside = self.volume_values() 
    21780 File
    21781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21782 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21783 return self.offset_values(v, n, tf) 
    21784 File
    21785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21786 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21787 values, outside = self.vertex_values(v, xf) 
    21788 File
    21789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21790 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21791 out_of_bounds_list = True) 
    21792 File
    21793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21794 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21795 subregion, step) 
    21796 File
    21797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21798 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21799 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21800 File
    21801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21802 packages/chimerax/map/volume.py", line 1243, in
    21803 matrix_indices_to_xyz_transform 
    21804 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21805 File
    21806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21807 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21808 r = self.subregion(step, subregion) 
    21809 File
    21810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21811 packages/chimerax/map/volume.py", line 1558, in subregion 
    21812 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21813 AttributeError: 'NoneType' object has no attribute 'size' 
    21814  
    21815 AttributeError: 'NoneType' object has no attribute 'size' 
    21816  
    21817 File
    21818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21819 packages/chimerax/map/volume.py", line 1558, in subregion 
    21820 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21821  
    21822 See log for complete Python traceback. 
    21823  
    21824 Traceback (most recent call last): 
    21825 File
    21826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21827 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21828 drew = self.draw_new_frame() 
    21829 File
    21830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21831 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21832 surface.update_clip_caps(view) 
    21833 File
    21834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21835 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21836 subdivision = settings.clipping_cap_subdivision) 
    21837 File
    21838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21839 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21840 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21841 File
    21842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21843 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21844 cm.set_geometry(varray, narray, tarray) 
    21845 File
    21846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21847 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21848 arv() 
    21849 File
    21850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21851 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21852 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21853 File
    21854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21855 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21856 s.vertex_colors = self.vertex_colors(report_stats) 
    21857 File
    21858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21859 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21860 values, outside = self.volume_values() 
    21861 File
    21862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21863 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21864 return self.offset_values(v, n, tf) 
    21865 File
    21866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21867 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21868 values, outside = self.vertex_values(v, xf) 
    21869 File
    21870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21871 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21872 out_of_bounds_list = True) 
    21873 File
    21874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21875 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21876 subregion, step) 
    21877 File
    21878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21879 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21880 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21881 File
    21882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21883 packages/chimerax/map/volume.py", line 1243, in
    21884 matrix_indices_to_xyz_transform 
    21885 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21886 File
    21887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21888 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21889 r = self.subregion(step, subregion) 
    21890 File
    21891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21892 packages/chimerax/map/volume.py", line 1558, in subregion 
    21893 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21894 AttributeError: 'NoneType' object has no attribute 'size' 
    21895  
    21896 AttributeError: 'NoneType' object has no attribute 'size' 
    21897  
    21898 File
    21899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21900 packages/chimerax/map/volume.py", line 1558, in subregion 
    21901 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21902  
    21903 See log for complete Python traceback. 
    21904  
    21905 Traceback (most recent call last): 
    21906 File
    21907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21908 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21909 drew = self.draw_new_frame() 
    21910 File
    21911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21912 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21913 surface.update_clip_caps(view) 
    21914 File
    21915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21916 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21917 subdivision = settings.clipping_cap_subdivision) 
    21918 File
    21919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21920 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    21921 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    21922 File
    21923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21924 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    21925 cm.set_geometry(varray, narray, tarray) 
    21926 File
    21927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21928 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    21929 arv() 
    21930 File
    21931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21932 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    21933 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    21934 File
    21935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21936 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    21937 s.vertex_colors = self.vertex_colors(report_stats) 
    21938 File
    21939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21940 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    21941 values, outside = self.volume_values() 
    21942 File
    21943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21944 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    21945 return self.offset_values(v, n, tf) 
    21946 File
    21947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21948 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    21949 values, outside = self.vertex_values(v, xf) 
    21950 File
    21951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21952 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    21953 out_of_bounds_list = True) 
    21954 File
    21955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21956 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    21957 subregion, step) 
    21958 File
    21959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21960 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    21961 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    21962 File
    21963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21964 packages/chimerax/map/volume.py", line 1243, in
    21965 matrix_indices_to_xyz_transform 
    21966 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    21967 File
    21968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21969 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    21970 r = self.subregion(step, subregion) 
    21971 File
    21972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21973 packages/chimerax/map/volume.py", line 1558, in subregion 
    21974 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21975 AttributeError: 'NoneType' object has no attribute 'size' 
    21976  
    21977 AttributeError: 'NoneType' object has no attribute 'size' 
    21978  
    21979 File
    21980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21981 packages/chimerax/map/volume.py", line 1558, in subregion 
    21982 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    21983  
    21984 See log for complete Python traceback. 
    21985  
    21986 Traceback (most recent call last): 
    21987 File
    21988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21989 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    21990 drew = self.draw_new_frame() 
    21991 File
    21992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21993 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    21994 surface.update_clip_caps(view) 
    21995 File
    21996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    21997 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    21998 subdivision = settings.clipping_cap_subdivision) 
    21999 File
    22000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22001 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22002 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22003 File
    22004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22005 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22006 cm.set_geometry(varray, narray, tarray) 
    22007 File
    22008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22009 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22010 arv() 
    22011 File
    22012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22013 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22014 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22015 File
    22016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22017 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22018 s.vertex_colors = self.vertex_colors(report_stats) 
    22019 File
    22020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22021 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22022 values, outside = self.volume_values() 
    22023 File
    22024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22025 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22026 return self.offset_values(v, n, tf) 
    22027 File
    22028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22029 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22030 values, outside = self.vertex_values(v, xf) 
    22031 File
    22032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22033 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22034 out_of_bounds_list = True) 
    22035 File
    22036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22037 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22038 subregion, step) 
    22039 File
    22040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22041 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22042 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22043 File
    22044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22045 packages/chimerax/map/volume.py", line 1243, in
    22046 matrix_indices_to_xyz_transform 
    22047 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22048 File
    22049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22050 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22051 r = self.subregion(step, subregion) 
    22052 File
    22053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22054 packages/chimerax/map/volume.py", line 1558, in subregion 
    22055 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22056 AttributeError: 'NoneType' object has no attribute 'size' 
    22057  
    22058 AttributeError: 'NoneType' object has no attribute 'size' 
    22059  
    22060 File
    22061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22062 packages/chimerax/map/volume.py", line 1558, in subregion 
    22063 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22064  
    22065 See log for complete Python traceback. 
    22066  
    22067 Traceback (most recent call last): 
    22068 File
    22069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22070 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22071 drew = self.draw_new_frame() 
    22072 File
    22073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22074 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22075 surface.update_clip_caps(view) 
    22076 File
    22077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22078 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22079 subdivision = settings.clipping_cap_subdivision) 
    22080 File
    22081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22082 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22083 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22084 File
    22085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22086 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22087 cm.set_geometry(varray, narray, tarray) 
    22088 File
    22089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22090 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22091 arv() 
    22092 File
    22093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22094 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22095 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22096 File
    22097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22098 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22099 s.vertex_colors = self.vertex_colors(report_stats) 
    22100 File
    22101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22102 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22103 values, outside = self.volume_values() 
    22104 File
    22105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22106 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22107 return self.offset_values(v, n, tf) 
    22108 File
    22109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22110 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22111 values, outside = self.vertex_values(v, xf) 
    22112 File
    22113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22114 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22115 out_of_bounds_list = True) 
    22116 File
    22117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22118 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22119 subregion, step) 
    22120 File
    22121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22122 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22123 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22124 File
    22125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22126 packages/chimerax/map/volume.py", line 1243, in
    22127 matrix_indices_to_xyz_transform 
    22128 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22129 File
    22130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22131 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22132 r = self.subregion(step, subregion) 
    22133 File
    22134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22135 packages/chimerax/map/volume.py", line 1558, in subregion 
    22136 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22137 AttributeError: 'NoneType' object has no attribute 'size' 
    22138  
    22139 AttributeError: 'NoneType' object has no attribute 'size' 
    22140  
    22141 File
    22142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22143 packages/chimerax/map/volume.py", line 1558, in subregion 
    22144 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22145  
    22146 See log for complete Python traceback. 
    22147  
    22148 Traceback (most recent call last): 
    22149 File
    22150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22151 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22152 drew = self.draw_new_frame() 
    22153 File
    22154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22155 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22156 surface.update_clip_caps(view) 
    22157 File
    22158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22159 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22160 subdivision = settings.clipping_cap_subdivision) 
    22161 File
    22162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22163 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22164 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22165 File
    22166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22167 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22168 cm.set_geometry(varray, narray, tarray) 
    22169 File
    22170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22171 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22172 arv() 
    22173 File
    22174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22175 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22176 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22177 File
    22178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22179 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22180 s.vertex_colors = self.vertex_colors(report_stats) 
    22181 File
    22182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22183 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22184 values, outside = self.volume_values() 
    22185 File
    22186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22187 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22188 return self.offset_values(v, n, tf) 
    22189 File
    22190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22191 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22192 values, outside = self.vertex_values(v, xf) 
    22193 File
    22194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22195 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22196 out_of_bounds_list = True) 
    22197 File
    22198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22199 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22200 subregion, step) 
    22201 File
    22202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22203 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22204 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22205 File
    22206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22207 packages/chimerax/map/volume.py", line 1243, in
    22208 matrix_indices_to_xyz_transform 
    22209 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22210 File
    22211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22212 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22213 r = self.subregion(step, subregion) 
    22214 File
    22215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22216 packages/chimerax/map/volume.py", line 1558, in subregion 
    22217 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22218 AttributeError: 'NoneType' object has no attribute 'size' 
    22219  
    22220 AttributeError: 'NoneType' object has no attribute 'size' 
    22221  
    22222 File
    22223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22224 packages/chimerax/map/volume.py", line 1558, in subregion 
    22225 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22226  
    22227 See log for complete Python traceback. 
    22228  
    22229 Traceback (most recent call last): 
    22230 File
    22231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22232 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22233 drew = self.draw_new_frame() 
    22234 File
    22235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22236 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22237 surface.update_clip_caps(view) 
    22238 File
    22239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22240 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22241 subdivision = settings.clipping_cap_subdivision) 
    22242 File
    22243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22244 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22245 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22246 File
    22247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22248 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22249 cm.set_geometry(varray, narray, tarray) 
    22250 File
    22251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22252 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22253 arv() 
    22254 File
    22255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22256 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22257 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22258 File
    22259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22260 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22261 s.vertex_colors = self.vertex_colors(report_stats) 
    22262 File
    22263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22264 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22265 values, outside = self.volume_values() 
    22266 File
    22267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22268 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22269 return self.offset_values(v, n, tf) 
    22270 File
    22271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22272 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22273 values, outside = self.vertex_values(v, xf) 
    22274 File
    22275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22276 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22277 out_of_bounds_list = True) 
    22278 File
    22279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22280 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22281 subregion, step) 
    22282 File
    22283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22284 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22285 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22286 File
    22287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22288 packages/chimerax/map/volume.py", line 1243, in
    22289 matrix_indices_to_xyz_transform 
    22290 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22291 File
    22292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22293 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22294 r = self.subregion(step, subregion) 
    22295 File
    22296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22297 packages/chimerax/map/volume.py", line 1558, in subregion 
    22298 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22299 AttributeError: 'NoneType' object has no attribute 'size' 
    22300  
    22301 AttributeError: 'NoneType' object has no attribute 'size' 
    22302  
    22303 File
    22304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22305 packages/chimerax/map/volume.py", line 1558, in subregion 
    22306 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22307  
    22308 See log for complete Python traceback. 
    22309  
    22310 Traceback (most recent call last): 
    22311 File
    22312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22313 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22314 drew = self.draw_new_frame() 
    22315 File
    22316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22317 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22318 surface.update_clip_caps(view) 
    22319 File
    22320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22321 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22322 subdivision = settings.clipping_cap_subdivision) 
    22323 File
    22324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22325 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22326 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22327 File
    22328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22329 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22330 cm.set_geometry(varray, narray, tarray) 
    22331 File
    22332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22333 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22334 arv() 
    22335 File
    22336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22337 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22338 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22339 File
    22340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22341 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22342 s.vertex_colors = self.vertex_colors(report_stats) 
    22343 File
    22344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22345 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22346 values, outside = self.volume_values() 
    22347 File
    22348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22349 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22350 return self.offset_values(v, n, tf) 
    22351 File
    22352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22353 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22354 values, outside = self.vertex_values(v, xf) 
    22355 File
    22356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22357 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22358 out_of_bounds_list = True) 
    22359 File
    22360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22361 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22362 subregion, step) 
    22363 File
    22364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22365 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22366 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22367 File
    22368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22369 packages/chimerax/map/volume.py", line 1243, in
    22370 matrix_indices_to_xyz_transform 
    22371 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22372 File
    22373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22374 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22375 r = self.subregion(step, subregion) 
    22376 File
    22377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22378 packages/chimerax/map/volume.py", line 1558, in subregion 
    22379 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22380 AttributeError: 'NoneType' object has no attribute 'size' 
    22381  
    22382 AttributeError: 'NoneType' object has no attribute 'size' 
    22383  
    22384 File
    22385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22386 packages/chimerax/map/volume.py", line 1558, in subregion 
    22387 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22388  
    22389 See log for complete Python traceback. 
    22390  
    22391 Traceback (most recent call last): 
    22392 File
    22393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22394 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22395 drew = self.draw_new_frame() 
    22396 File
    22397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22398 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22399 surface.update_clip_caps(view) 
    22400 File
    22401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22402 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22403 subdivision = settings.clipping_cap_subdivision) 
    22404 File
    22405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22406 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22407 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22408 File
    22409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22410 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22411 cm.set_geometry(varray, narray, tarray) 
    22412 File
    22413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22414 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22415 arv() 
    22416 File
    22417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22418 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22419 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22420 File
    22421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22422 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22423 s.vertex_colors = self.vertex_colors(report_stats) 
    22424 File
    22425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22426 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22427 values, outside = self.volume_values() 
    22428 File
    22429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22430 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22431 return self.offset_values(v, n, tf) 
    22432 File
    22433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22434 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22435 values, outside = self.vertex_values(v, xf) 
    22436 File
    22437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22438 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22439 out_of_bounds_list = True) 
    22440 File
    22441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22442 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22443 subregion, step) 
    22444 File
    22445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22446 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22447 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22448 File
    22449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22450 packages/chimerax/map/volume.py", line 1243, in
    22451 matrix_indices_to_xyz_transform 
    22452 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22453 File
    22454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22455 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22456 r = self.subregion(step, subregion) 
    22457 File
    22458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22459 packages/chimerax/map/volume.py", line 1558, in subregion 
    22460 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22461 AttributeError: 'NoneType' object has no attribute 'size' 
    22462  
    22463 AttributeError: 'NoneType' object has no attribute 'size' 
    22464  
    22465 File
    22466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22467 packages/chimerax/map/volume.py", line 1558, in subregion 
    22468 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22469  
    22470 See log for complete Python traceback. 
    22471  
    22472 Traceback (most recent call last): 
    22473 File
    22474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22475 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22476 drew = self.draw_new_frame() 
    22477 File
    22478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22479 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22480 surface.update_clip_caps(view) 
    22481 File
    22482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22483 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22484 subdivision = settings.clipping_cap_subdivision) 
    22485 File
    22486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22487 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22488 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22489 File
    22490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22491 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22492 cm.set_geometry(varray, narray, tarray) 
    22493 File
    22494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22495 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22496 arv() 
    22497 File
    22498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22499 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22500 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22501 File
    22502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22503 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22504 s.vertex_colors = self.vertex_colors(report_stats) 
    22505 File
    22506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22507 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22508 values, outside = self.volume_values() 
    22509 File
    22510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22511 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22512 return self.offset_values(v, n, tf) 
    22513 File
    22514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22515 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22516 values, outside = self.vertex_values(v, xf) 
    22517 File
    22518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22519 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22520 out_of_bounds_list = True) 
    22521 File
    22522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22523 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22524 subregion, step) 
    22525 File
    22526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22527 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22528 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22529 File
    22530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22531 packages/chimerax/map/volume.py", line 1243, in
    22532 matrix_indices_to_xyz_transform 
    22533 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22534 File
    22535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22536 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22537 r = self.subregion(step, subregion) 
    22538 File
    22539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22540 packages/chimerax/map/volume.py", line 1558, in subregion 
    22541 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22542 AttributeError: 'NoneType' object has no attribute 'size' 
    22543  
    22544 AttributeError: 'NoneType' object has no attribute 'size' 
    22545  
    22546 File
    22547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22548 packages/chimerax/map/volume.py", line 1558, in subregion 
    22549 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22550  
    22551 See log for complete Python traceback. 
    22552  
    22553 Traceback (most recent call last): 
    22554 File
    22555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22556 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22557 drew = self.draw_new_frame() 
    22558 File
    22559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22560 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22561 surface.update_clip_caps(view) 
    22562 File
    22563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22564 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22565 subdivision = settings.clipping_cap_subdivision) 
    22566 File
    22567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22568 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22569 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22570 File
    22571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22572 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22573 cm.set_geometry(varray, narray, tarray) 
    22574 File
    22575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22576 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22577 arv() 
    22578 File
    22579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22580 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22581 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22582 File
    22583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22584 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22585 s.vertex_colors = self.vertex_colors(report_stats) 
    22586 File
    22587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22588 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22589 values, outside = self.volume_values() 
    22590 File
    22591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22592 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22593 return self.offset_values(v, n, tf) 
    22594 File
    22595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22596 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22597 values, outside = self.vertex_values(v, xf) 
    22598 File
    22599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22600 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22601 out_of_bounds_list = True) 
    22602 File
    22603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22604 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22605 subregion, step) 
    22606 File
    22607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22608 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22609 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22610 File
    22611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22612 packages/chimerax/map/volume.py", line 1243, in
    22613 matrix_indices_to_xyz_transform 
    22614 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22615 File
    22616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22617 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22618 r = self.subregion(step, subregion) 
    22619 File
    22620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22621 packages/chimerax/map/volume.py", line 1558, in subregion 
    22622 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22623 AttributeError: 'NoneType' object has no attribute 'size' 
    22624  
    22625 AttributeError: 'NoneType' object has no attribute 'size' 
    22626  
    22627 File
    22628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22629 packages/chimerax/map/volume.py", line 1558, in subregion 
    22630 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22631  
    22632 See log for complete Python traceback. 
    22633  
    22634 Traceback (most recent call last): 
    22635 File
    22636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22637 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22638 drew = self.draw_new_frame() 
    22639 File
    22640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22641 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22642 surface.update_clip_caps(view) 
    22643 File
    22644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22645 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22646 subdivision = settings.clipping_cap_subdivision) 
    22647 File
    22648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22649 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22650 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22651 File
    22652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22653 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22654 cm.set_geometry(varray, narray, tarray) 
    22655 File
    22656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22657 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22658 arv() 
    22659 File
    22660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22661 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22662 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22663 File
    22664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22665 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22666 s.vertex_colors = self.vertex_colors(report_stats) 
    22667 File
    22668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22669 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22670 values, outside = self.volume_values() 
    22671 File
    22672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22673 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22674 return self.offset_values(v, n, tf) 
    22675 File
    22676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22677 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22678 values, outside = self.vertex_values(v, xf) 
    22679 File
    22680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22681 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22682 out_of_bounds_list = True) 
    22683 File
    22684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22685 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22686 subregion, step) 
    22687 File
    22688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22689 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22690 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22691 File
    22692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22693 packages/chimerax/map/volume.py", line 1243, in
    22694 matrix_indices_to_xyz_transform 
    22695 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22696 File
    22697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22698 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22699 r = self.subregion(step, subregion) 
    22700 File
    22701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22702 packages/chimerax/map/volume.py", line 1558, in subregion 
    22703 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22704 AttributeError: 'NoneType' object has no attribute 'size' 
    22705  
    22706 AttributeError: 'NoneType' object has no attribute 'size' 
    22707  
    22708 File
    22709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22710 packages/chimerax/map/volume.py", line 1558, in subregion 
    22711 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22712  
    22713 See log for complete Python traceback. 
    22714  
    22715 Traceback (most recent call last): 
    22716 File
    22717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22718 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22719 drew = self.draw_new_frame() 
    22720 File
    22721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22722 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22723 surface.update_clip_caps(view) 
    22724 File
    22725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22726 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22727 subdivision = settings.clipping_cap_subdivision) 
    22728 File
    22729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22730 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22731 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22732 File
    22733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22734 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22735 cm.set_geometry(varray, narray, tarray) 
    22736 File
    22737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22738 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22739 arv() 
    22740 File
    22741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22742 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22743 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22744 File
    22745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22746 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22747 s.vertex_colors = self.vertex_colors(report_stats) 
    22748 File
    22749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22750 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22751 values, outside = self.volume_values() 
    22752 File
    22753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22754 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22755 return self.offset_values(v, n, tf) 
    22756 File
    22757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22758 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22759 values, outside = self.vertex_values(v, xf) 
    22760 File
    22761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22762 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22763 out_of_bounds_list = True) 
    22764 File
    22765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22766 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22767 subregion, step) 
    22768 File
    22769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22770 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22771 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22772 File
    22773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22774 packages/chimerax/map/volume.py", line 1243, in
    22775 matrix_indices_to_xyz_transform 
    22776 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22777 File
    22778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22779 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22780 r = self.subregion(step, subregion) 
    22781 File
    22782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22783 packages/chimerax/map/volume.py", line 1558, in subregion 
    22784 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22785 AttributeError: 'NoneType' object has no attribute 'size' 
    22786  
    22787 AttributeError: 'NoneType' object has no attribute 'size' 
    22788  
    22789 File
    22790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22791 packages/chimerax/map/volume.py", line 1558, in subregion 
    22792 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22793  
    22794 See log for complete Python traceback. 
    22795  
    22796 Traceback (most recent call last): 
    22797 File
    22798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22799 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22800 drew = self.draw_new_frame() 
    22801 File
    22802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22803 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22804 surface.update_clip_caps(view) 
    22805 File
    22806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22807 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22808 subdivision = settings.clipping_cap_subdivision) 
    22809 File
    22810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22811 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22812 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22813 File
    22814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22815 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22816 cm.set_geometry(varray, narray, tarray) 
    22817 File
    22818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22819 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22820 arv() 
    22821 File
    22822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22823 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22824 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22825 File
    22826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22827 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22828 s.vertex_colors = self.vertex_colors(report_stats) 
    22829 File
    22830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22831 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22832 values, outside = self.volume_values() 
    22833 File
    22834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22835 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22836 return self.offset_values(v, n, tf) 
    22837 File
    22838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22839 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22840 values, outside = self.vertex_values(v, xf) 
    22841 File
    22842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22843 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22844 out_of_bounds_list = True) 
    22845 File
    22846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22847 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22848 subregion, step) 
    22849 File
    22850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22851 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22852 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22853 File
    22854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22855 packages/chimerax/map/volume.py", line 1243, in
    22856 matrix_indices_to_xyz_transform 
    22857 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22858 File
    22859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22860 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22861 r = self.subregion(step, subregion) 
    22862 File
    22863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22864 packages/chimerax/map/volume.py", line 1558, in subregion 
    22865 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22866 AttributeError: 'NoneType' object has no attribute 'size' 
    22867  
    22868 AttributeError: 'NoneType' object has no attribute 'size' 
    22869  
    22870 File
    22871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22872 packages/chimerax/map/volume.py", line 1558, in subregion 
    22873 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22874  
    22875 See log for complete Python traceback. 
    22876  
    22877 Traceback (most recent call last): 
    22878 File
    22879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22880 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22881 drew = self.draw_new_frame() 
    22882 File
    22883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22884 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22885 surface.update_clip_caps(view) 
    22886 File
    22887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22888 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22889 subdivision = settings.clipping_cap_subdivision) 
    22890 File
    22891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22892 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22893 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22894 File
    22895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22896 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22897 cm.set_geometry(varray, narray, tarray) 
    22898 File
    22899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22900 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22901 arv() 
    22902 File
    22903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22904 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22905 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22906 File
    22907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22908 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22909 s.vertex_colors = self.vertex_colors(report_stats) 
    22910 File
    22911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22912 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22913 values, outside = self.volume_values() 
    22914 File
    22915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22916 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22917 return self.offset_values(v, n, tf) 
    22918 File
    22919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22920 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    22921 values, outside = self.vertex_values(v, xf) 
    22922 File
    22923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22924 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    22925 out_of_bounds_list = True) 
    22926 File
    22927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22928 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    22929 subregion, step) 
    22930 File
    22931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22932 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    22933 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    22934 File
    22935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22936 packages/chimerax/map/volume.py", line 1243, in
    22937 matrix_indices_to_xyz_transform 
    22938 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    22939 File
    22940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22941 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    22942 r = self.subregion(step, subregion) 
    22943 File
    22944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22945 packages/chimerax/map/volume.py", line 1558, in subregion 
    22946 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22947 AttributeError: 'NoneType' object has no attribute 'size' 
    22948  
    22949 AttributeError: 'NoneType' object has no attribute 'size' 
    22950  
    22951 File
    22952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22953 packages/chimerax/map/volume.py", line 1558, in subregion 
    22954 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    22955  
    22956 See log for complete Python traceback. 
    22957  
    22958 Traceback (most recent call last): 
    22959 File
    22960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22961 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    22962 drew = self.draw_new_frame() 
    22963 File
    22964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22965 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    22966 surface.update_clip_caps(view) 
    22967 File
    22968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22969 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    22970 subdivision = settings.clipping_cap_subdivision) 
    22971 File
    22972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22973 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    22974 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    22975 File
    22976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22977 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    22978 cm.set_geometry(varray, narray, tarray) 
    22979 File
    22980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22981 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    22982 arv() 
    22983 File
    22984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22985 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    22986 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    22987 File
    22988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22989 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    22990 s.vertex_colors = self.vertex_colors(report_stats) 
    22991 File
    22992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22993 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    22994 values, outside = self.volume_values() 
    22995 File
    22996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    22997 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    22998 return self.offset_values(v, n, tf) 
    22999 File
    23000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23001 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23002 values, outside = self.vertex_values(v, xf) 
    23003 File
    23004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23005 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23006 out_of_bounds_list = True) 
    23007 File
    23008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23009 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23010 subregion, step) 
    23011 File
    23012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23013 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23014 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23015 File
    23016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23017 packages/chimerax/map/volume.py", line 1243, in
    23018 matrix_indices_to_xyz_transform 
    23019 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23020 File
    23021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23022 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23023 r = self.subregion(step, subregion) 
    23024 File
    23025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23026 packages/chimerax/map/volume.py", line 1558, in subregion 
    23027 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23028 AttributeError: 'NoneType' object has no attribute 'size' 
    23029  
    23030 AttributeError: 'NoneType' object has no attribute 'size' 
    23031  
    23032 File
    23033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23034 packages/chimerax/map/volume.py", line 1558, in subregion 
    23035 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23036  
    23037 See log for complete Python traceback. 
    23038  
    23039 Traceback (most recent call last): 
    23040 File
    23041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23042 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23043 drew = self.draw_new_frame() 
    23044 File
    23045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23046 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23047 surface.update_clip_caps(view) 
    23048 File
    23049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23050 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23051 subdivision = settings.clipping_cap_subdivision) 
    23052 File
    23053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23054 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23055 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23056 File
    23057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23058 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23059 cm.set_geometry(varray, narray, tarray) 
    23060 File
    23061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23062 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23063 arv() 
    23064 File
    23065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23066 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23067 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23068 File
    23069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23070 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23071 s.vertex_colors = self.vertex_colors(report_stats) 
    23072 File
    23073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23074 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23075 values, outside = self.volume_values() 
    23076 File
    23077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23078 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23079 return self.offset_values(v, n, tf) 
    23080 File
    23081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23082 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23083 values, outside = self.vertex_values(v, xf) 
    23084 File
    23085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23086 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23087 out_of_bounds_list = True) 
    23088 File
    23089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23090 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23091 subregion, step) 
    23092 File
    23093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23094 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23095 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23096 File
    23097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23098 packages/chimerax/map/volume.py", line 1243, in
    23099 matrix_indices_to_xyz_transform 
    23100 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23101 File
    23102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23103 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23104 r = self.subregion(step, subregion) 
    23105 File
    23106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23107 packages/chimerax/map/volume.py", line 1558, in subregion 
    23108 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23109 AttributeError: 'NoneType' object has no attribute 'size' 
    23110  
    23111 AttributeError: 'NoneType' object has no attribute 'size' 
    23112  
    23113 File
    23114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23115 packages/chimerax/map/volume.py", line 1558, in subregion 
    23116 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23117  
    23118 See log for complete Python traceback. 
    23119  
    23120 Traceback (most recent call last): 
    23121 File
    23122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23123 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23124 drew = self.draw_new_frame() 
    23125 File
    23126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23127 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23128 surface.update_clip_caps(view) 
    23129 File
    23130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23131 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23132 subdivision = settings.clipping_cap_subdivision) 
    23133 File
    23134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23135 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23136 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23137 File
    23138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23139 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23140 cm.set_geometry(varray, narray, tarray) 
    23141 File
    23142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23143 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23144 arv() 
    23145 File
    23146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23147 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23148 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23149 File
    23150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23151 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23152 s.vertex_colors = self.vertex_colors(report_stats) 
    23153 File
    23154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23155 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23156 values, outside = self.volume_values() 
    23157 File
    23158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23159 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23160 return self.offset_values(v, n, tf) 
    23161 File
    23162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23163 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23164 values, outside = self.vertex_values(v, xf) 
    23165 File
    23166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23167 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23168 out_of_bounds_list = True) 
    23169 File
    23170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23171 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23172 subregion, step) 
    23173 File
    23174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23175 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23176 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23177 File
    23178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23179 packages/chimerax/map/volume.py", line 1243, in
    23180 matrix_indices_to_xyz_transform 
    23181 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23182 File
    23183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23184 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23185 r = self.subregion(step, subregion) 
    23186 File
    23187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23188 packages/chimerax/map/volume.py", line 1558, in subregion 
    23189 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23190 AttributeError: 'NoneType' object has no attribute 'size' 
    23191  
    23192 AttributeError: 'NoneType' object has no attribute 'size' 
    23193  
    23194 File
    23195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23196 packages/chimerax/map/volume.py", line 1558, in subregion 
    23197 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23198  
    23199 See log for complete Python traceback. 
    23200  
    23201 Traceback (most recent call last): 
    23202 File
    23203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23204 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23205 drew = self.draw_new_frame() 
    23206 File
    23207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23208 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23209 surface.update_clip_caps(view) 
    23210 File
    23211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23212 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23213 subdivision = settings.clipping_cap_subdivision) 
    23214 File
    23215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23216 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23217 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23218 File
    23219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23220 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23221 cm.set_geometry(varray, narray, tarray) 
    23222 File
    23223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23224 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23225 arv() 
    23226 File
    23227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23228 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23229 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23230 File
    23231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23232 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23233 s.vertex_colors = self.vertex_colors(report_stats) 
    23234 File
    23235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23236 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23237 values, outside = self.volume_values() 
    23238 File
    23239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23240 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23241 return self.offset_values(v, n, tf) 
    23242 File
    23243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23244 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23245 values, outside = self.vertex_values(v, xf) 
    23246 File
    23247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23248 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23249 out_of_bounds_list = True) 
    23250 File
    23251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23252 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23253 subregion, step) 
    23254 File
    23255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23256 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23257 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23258 File
    23259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23260 packages/chimerax/map/volume.py", line 1243, in
    23261 matrix_indices_to_xyz_transform 
    23262 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23263 File
    23264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23265 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23266 r = self.subregion(step, subregion) 
    23267 File
    23268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23269 packages/chimerax/map/volume.py", line 1558, in subregion 
    23270 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23271 AttributeError: 'NoneType' object has no attribute 'size' 
    23272  
    23273 AttributeError: 'NoneType' object has no attribute 'size' 
    23274  
    23275 File
    23276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23277 packages/chimerax/map/volume.py", line 1558, in subregion 
    23278 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23279  
    23280 See log for complete Python traceback. 
    23281  
    23282 Traceback (most recent call last): 
    23283 File
    23284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23285 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23286 drew = self.draw_new_frame() 
    23287 File
    23288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23289 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23290 surface.update_clip_caps(view) 
    23291 File
    23292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23293 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23294 subdivision = settings.clipping_cap_subdivision) 
    23295 File
    23296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23297 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23298 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23299 File
    23300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23301 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23302 cm.set_geometry(varray, narray, tarray) 
    23303 File
    23304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23305 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23306 arv() 
    23307 File
    23308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23309 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23310 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23311 File
    23312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23313 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23314 s.vertex_colors = self.vertex_colors(report_stats) 
    23315 File
    23316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23317 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23318 values, outside = self.volume_values() 
    23319 File
    23320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23321 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23322 return self.offset_values(v, n, tf) 
    23323 File
    23324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23325 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23326 values, outside = self.vertex_values(v, xf) 
    23327 File
    23328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23329 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23330 out_of_bounds_list = True) 
    23331 File
    23332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23333 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23334 subregion, step) 
    23335 File
    23336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23337 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23338 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23339 File
    23340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23341 packages/chimerax/map/volume.py", line 1243, in
    23342 matrix_indices_to_xyz_transform 
    23343 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23344 File
    23345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23346 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23347 r = self.subregion(step, subregion) 
    23348 File
    23349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23350 packages/chimerax/map/volume.py", line 1558, in subregion 
    23351 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23352 AttributeError: 'NoneType' object has no attribute 'size' 
    23353  
    23354 AttributeError: 'NoneType' object has no attribute 'size' 
    23355  
    23356 File
    23357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23358 packages/chimerax/map/volume.py", line 1558, in subregion 
    23359 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23360  
    23361 See log for complete Python traceback. 
    23362  
    23363 Traceback (most recent call last): 
    23364 File
    23365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23366 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23367 drew = self.draw_new_frame() 
    23368 File
    23369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23370 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23371 surface.update_clip_caps(view) 
    23372 File
    23373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23374 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23375 subdivision = settings.clipping_cap_subdivision) 
    23376 File
    23377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23378 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23379 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23380 File
    23381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23382 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23383 cm.set_geometry(varray, narray, tarray) 
    23384 File
    23385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23386 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23387 arv() 
    23388 File
    23389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23390 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23391 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23392 File
    23393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23394 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23395 s.vertex_colors = self.vertex_colors(report_stats) 
    23396 File
    23397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23398 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23399 values, outside = self.volume_values() 
    23400 File
    23401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23402 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23403 return self.offset_values(v, n, tf) 
    23404 File
    23405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23406 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23407 values, outside = self.vertex_values(v, xf) 
    23408 File
    23409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23410 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23411 out_of_bounds_list = True) 
    23412 File
    23413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23414 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23415 subregion, step) 
    23416 File
    23417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23418 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23419 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23420 File
    23421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23422 packages/chimerax/map/volume.py", line 1243, in
    23423 matrix_indices_to_xyz_transform 
    23424 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23425 File
    23426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23427 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23428 r = self.subregion(step, subregion) 
    23429 File
    23430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23431 packages/chimerax/map/volume.py", line 1558, in subregion 
    23432 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23433 AttributeError: 'NoneType' object has no attribute 'size' 
    23434  
    23435 AttributeError: 'NoneType' object has no attribute 'size' 
    23436  
    23437 File
    23438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23439 packages/chimerax/map/volume.py", line 1558, in subregion 
    23440 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23441  
    23442 See log for complete Python traceback. 
    23443  
    23444 Traceback (most recent call last): 
    23445 File
    23446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23447 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23448 drew = self.draw_new_frame() 
    23449 File
    23450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23451 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23452 surface.update_clip_caps(view) 
    23453 File
    23454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23455 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23456 subdivision = settings.clipping_cap_subdivision) 
    23457 File
    23458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23459 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23460 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23461 File
    23462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23463 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23464 cm.set_geometry(varray, narray, tarray) 
    23465 File
    23466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23467 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23468 arv() 
    23469 File
    23470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23471 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23472 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23473 File
    23474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23475 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23476 s.vertex_colors = self.vertex_colors(report_stats) 
    23477 File
    23478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23479 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23480 values, outside = self.volume_values() 
    23481 File
    23482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23483 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23484 return self.offset_values(v, n, tf) 
    23485 File
    23486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23487 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23488 values, outside = self.vertex_values(v, xf) 
    23489 File
    23490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23491 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23492 out_of_bounds_list = True) 
    23493 File
    23494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23495 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23496 subregion, step) 
    23497 File
    23498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23499 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23500 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23501 File
    23502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23503 packages/chimerax/map/volume.py", line 1243, in
    23504 matrix_indices_to_xyz_transform 
    23505 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23506 File
    23507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23508 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23509 r = self.subregion(step, subregion) 
    23510 File
    23511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23512 packages/chimerax/map/volume.py", line 1558, in subregion 
    23513 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23514 AttributeError: 'NoneType' object has no attribute 'size' 
    23515  
    23516 AttributeError: 'NoneType' object has no attribute 'size' 
    23517  
    23518 File
    23519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23520 packages/chimerax/map/volume.py", line 1558, in subregion 
    23521 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23522  
    23523 See log for complete Python traceback. 
    23524  
    23525 Traceback (most recent call last): 
    23526 File
    23527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23528 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23529 drew = self.draw_new_frame() 
    23530 File
    23531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23532 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23533 surface.update_clip_caps(view) 
    23534 File
    23535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23536 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23537 subdivision = settings.clipping_cap_subdivision) 
    23538 File
    23539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23540 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23541 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23542 File
    23543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23544 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23545 cm.set_geometry(varray, narray, tarray) 
    23546 File
    23547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23548 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23549 arv() 
    23550 File
    23551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23552 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23553 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23554 File
    23555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23556 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23557 s.vertex_colors = self.vertex_colors(report_stats) 
    23558 File
    23559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23560 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23561 values, outside = self.volume_values() 
    23562 File
    23563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23564 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23565 return self.offset_values(v, n, tf) 
    23566 File
    23567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23568 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23569 values, outside = self.vertex_values(v, xf) 
    23570 File
    23571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23572 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23573 out_of_bounds_list = True) 
    23574 File
    23575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23576 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23577 subregion, step) 
    23578 File
    23579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23580 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23581 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23582 File
    23583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23584 packages/chimerax/map/volume.py", line 1243, in
    23585 matrix_indices_to_xyz_transform 
    23586 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23587 File
    23588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23589 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23590 r = self.subregion(step, subregion) 
    23591 File
    23592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23593 packages/chimerax/map/volume.py", line 1558, in subregion 
    23594 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23595 AttributeError: 'NoneType' object has no attribute 'size' 
    23596  
    23597 AttributeError: 'NoneType' object has no attribute 'size' 
    23598  
    23599 File
    23600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23601 packages/chimerax/map/volume.py", line 1558, in subregion 
    23602 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23603  
    23604 See log for complete Python traceback. 
    23605  
    23606 Traceback (most recent call last): 
    23607 File
    23608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23609 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23610 drew = self.draw_new_frame() 
    23611 File
    23612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23613 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23614 surface.update_clip_caps(view) 
    23615 File
    23616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23617 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23618 subdivision = settings.clipping_cap_subdivision) 
    23619 File
    23620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23621 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23622 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23623 File
    23624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23625 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23626 cm.set_geometry(varray, narray, tarray) 
    23627 File
    23628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23629 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23630 arv() 
    23631 File
    23632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23633 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23634 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23635 File
    23636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23637 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23638 s.vertex_colors = self.vertex_colors(report_stats) 
    23639 File
    23640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23641 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23642 values, outside = self.volume_values() 
    23643 File
    23644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23645 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23646 return self.offset_values(v, n, tf) 
    23647 File
    23648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23649 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23650 values, outside = self.vertex_values(v, xf) 
    23651 File
    23652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23653 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23654 out_of_bounds_list = True) 
    23655 File
    23656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23657 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23658 subregion, step) 
    23659 File
    23660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23661 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23662 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23663 File
    23664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23665 packages/chimerax/map/volume.py", line 1243, in
    23666 matrix_indices_to_xyz_transform 
    23667 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23668 File
    23669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23670 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23671 r = self.subregion(step, subregion) 
    23672 File
    23673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23674 packages/chimerax/map/volume.py", line 1558, in subregion 
    23675 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23676 AttributeError: 'NoneType' object has no attribute 'size' 
    23677  
    23678 AttributeError: 'NoneType' object has no attribute 'size' 
    23679  
    23680 File
    23681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23682 packages/chimerax/map/volume.py", line 1558, in subregion 
    23683 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23684  
    23685 See log for complete Python traceback. 
    23686  
    23687 Traceback (most recent call last): 
    23688 File
    23689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23690 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23691 drew = self.draw_new_frame() 
    23692 File
    23693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23694 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23695 surface.update_clip_caps(view) 
    23696 File
    23697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23698 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23699 subdivision = settings.clipping_cap_subdivision) 
    23700 File
    23701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23702 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23703 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23704 File
    23705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23706 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23707 cm.set_geometry(varray, narray, tarray) 
    23708 File
    23709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23710 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23711 arv() 
    23712 File
    23713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23714 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23715 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23716 File
    23717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23718 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23719 s.vertex_colors = self.vertex_colors(report_stats) 
    23720 File
    23721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23722 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23723 values, outside = self.volume_values() 
    23724 File
    23725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23726 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23727 return self.offset_values(v, n, tf) 
    23728 File
    23729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23730 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23731 values, outside = self.vertex_values(v, xf) 
    23732 File
    23733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23734 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23735 out_of_bounds_list = True) 
    23736 File
    23737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23738 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23739 subregion, step) 
    23740 File
    23741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23742 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23743 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23744 File
    23745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23746 packages/chimerax/map/volume.py", line 1243, in
    23747 matrix_indices_to_xyz_transform 
    23748 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23749 File
    23750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23751 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23752 r = self.subregion(step, subregion) 
    23753 File
    23754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23755 packages/chimerax/map/volume.py", line 1558, in subregion 
    23756 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23757 AttributeError: 'NoneType' object has no attribute 'size' 
    23758  
    23759 AttributeError: 'NoneType' object has no attribute 'size' 
    23760  
    23761 File
    23762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23763 packages/chimerax/map/volume.py", line 1558, in subregion 
    23764 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23765  
    23766 See log for complete Python traceback. 
    23767  
    23768 Traceback (most recent call last): 
    23769 File
    23770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23771 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23772 drew = self.draw_new_frame() 
    23773 File
    23774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23775 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23776 surface.update_clip_caps(view) 
    23777 File
    23778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23779 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23780 subdivision = settings.clipping_cap_subdivision) 
    23781 File
    23782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23783 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23784 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23785 File
    23786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23787 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23788 cm.set_geometry(varray, narray, tarray) 
    23789 File
    23790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23791 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23792 arv() 
    23793 File
    23794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23795 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23796 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23797 File
    23798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23799 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23800 s.vertex_colors = self.vertex_colors(report_stats) 
    23801 File
    23802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23803 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23804 values, outside = self.volume_values() 
    23805 File
    23806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23807 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23808 return self.offset_values(v, n, tf) 
    23809 File
    23810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23811 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23812 values, outside = self.vertex_values(v, xf) 
    23813 File
    23814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23815 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23816 out_of_bounds_list = True) 
    23817 File
    23818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23819 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23820 subregion, step) 
    23821 File
    23822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23823 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23824 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23825 File
    23826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23827 packages/chimerax/map/volume.py", line 1243, in
    23828 matrix_indices_to_xyz_transform 
    23829 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23830 File
    23831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23832 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23833 r = self.subregion(step, subregion) 
    23834 File
    23835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23836 packages/chimerax/map/volume.py", line 1558, in subregion 
    23837 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23838 AttributeError: 'NoneType' object has no attribute 'size' 
    23839  
    23840 AttributeError: 'NoneType' object has no attribute 'size' 
    23841  
    23842 File
    23843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23844 packages/chimerax/map/volume.py", line 1558, in subregion 
    23845 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23846  
    23847 See log for complete Python traceback. 
    23848  
    23849 Traceback (most recent call last): 
    23850 File
    23851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23852 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23853 drew = self.draw_new_frame() 
    23854 File
    23855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23856 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23857 surface.update_clip_caps(view) 
    23858 File
    23859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23860 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23861 subdivision = settings.clipping_cap_subdivision) 
    23862 File
    23863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23864 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23865 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23866 File
    23867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23868 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23869 cm.set_geometry(varray, narray, tarray) 
    23870 File
    23871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23872 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23873 arv() 
    23874 File
    23875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23876 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23877 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23878 File
    23879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23880 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23881 s.vertex_colors = self.vertex_colors(report_stats) 
    23882 File
    23883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23884 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23885 values, outside = self.volume_values() 
    23886 File
    23887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23888 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23889 return self.offset_values(v, n, tf) 
    23890 File
    23891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23892 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23893 values, outside = self.vertex_values(v, xf) 
    23894 File
    23895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23896 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23897 out_of_bounds_list = True) 
    23898 File
    23899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23900 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23901 subregion, step) 
    23902 File
    23903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23904 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23905 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23906 File
    23907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23908 packages/chimerax/map/volume.py", line 1243, in
    23909 matrix_indices_to_xyz_transform 
    23910 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23911 File
    23912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23913 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23914 r = self.subregion(step, subregion) 
    23915 File
    23916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23917 packages/chimerax/map/volume.py", line 1558, in subregion 
    23918 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23919 AttributeError: 'NoneType' object has no attribute 'size' 
    23920  
    23921 AttributeError: 'NoneType' object has no attribute 'size' 
    23922  
    23923 File
    23924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23925 packages/chimerax/map/volume.py", line 1558, in subregion 
    23926 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    23927  
    23928 See log for complete Python traceback. 
    23929  
    23930 Traceback (most recent call last): 
    23931 File
    23932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23933 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    23934 drew = self.draw_new_frame() 
    23935 File
    23936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23937 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    23938 surface.update_clip_caps(view) 
    23939 File
    23940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23941 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    23942 subdivision = settings.clipping_cap_subdivision) 
    23943 File
    23944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23945 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    23946 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    23947 File
    23948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23949 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    23950 cm.set_geometry(varray, narray, tarray) 
    23951 File
    23952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23953 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    23954 arv() 
    23955 File
    23956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23957 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    23958 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    23959 File
    23960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23961 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    23962 s.vertex_colors = self.vertex_colors(report_stats) 
    23963 File
    23964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23965 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    23966 values, outside = self.volume_values() 
    23967 File
    23968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23969 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    23970 return self.offset_values(v, n, tf) 
    23971 File
    23972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23973 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    23974 values, outside = self.vertex_values(v, xf) 
    23975 File
    23976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23977 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    23978 out_of_bounds_list = True) 
    23979 File
    23980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23981 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    23982 subregion, step) 
    23983 File
    23984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23985 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    23986 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    23987 File
    23988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23989 packages/chimerax/map/volume.py", line 1243, in
    23990 matrix_indices_to_xyz_transform 
    23991 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    23992 File
    23993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23994 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    23995 r = self.subregion(step, subregion) 
    23996 File
    23997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    23998 packages/chimerax/map/volume.py", line 1558, in subregion 
    23999 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24000 AttributeError: 'NoneType' object has no attribute 'size' 
    24001  
    24002 AttributeError: 'NoneType' object has no attribute 'size' 
    24003  
    24004 File
    24005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24006 packages/chimerax/map/volume.py", line 1558, in subregion 
    24007 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24008  
    24009 See log for complete Python traceback. 
    24010  
    24011 Traceback (most recent call last): 
    24012 File
    24013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24014 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24015 drew = self.draw_new_frame() 
    24016 File
    24017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24018 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24019 surface.update_clip_caps(view) 
    24020 File
    24021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24022 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24023 subdivision = settings.clipping_cap_subdivision) 
    24024 File
    24025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24026 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24027 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24028 File
    24029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24030 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24031 cm.set_geometry(varray, narray, tarray) 
    24032 File
    24033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24034 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24035 arv() 
    24036 File
    24037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24038 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24039 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24040 File
    24041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24042 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24043 s.vertex_colors = self.vertex_colors(report_stats) 
    24044 File
    24045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24046 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24047 values, outside = self.volume_values() 
    24048 File
    24049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24050 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24051 return self.offset_values(v, n, tf) 
    24052 File
    24053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24054 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24055 values, outside = self.vertex_values(v, xf) 
    24056 File
    24057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24058 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24059 out_of_bounds_list = True) 
    24060 File
    24061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24062 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24063 subregion, step) 
    24064 File
    24065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24066 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24067 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24068 File
    24069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24070 packages/chimerax/map/volume.py", line 1243, in
    24071 matrix_indices_to_xyz_transform 
    24072 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24073 File
    24074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24075 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24076 r = self.subregion(step, subregion) 
    24077 File
    24078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24079 packages/chimerax/map/volume.py", line 1558, in subregion 
    24080 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24081 AttributeError: 'NoneType' object has no attribute 'size' 
    24082  
    24083 AttributeError: 'NoneType' object has no attribute 'size' 
    24084  
    24085 File
    24086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24087 packages/chimerax/map/volume.py", line 1558, in subregion 
    24088 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24089  
    24090 See log for complete Python traceback. 
    24091  
    24092 Traceback (most recent call last): 
    24093 File
    24094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24095 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24096 drew = self.draw_new_frame() 
    24097 File
    24098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24099 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24100 surface.update_clip_caps(view) 
    24101 File
    24102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24103 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24104 subdivision = settings.clipping_cap_subdivision) 
    24105 File
    24106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24107 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24108 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24109 File
    24110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24111 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24112 cm.set_geometry(varray, narray, tarray) 
    24113 File
    24114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24115 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24116 arv() 
    24117 File
    24118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24119 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24120 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24121 File
    24122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24123 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24124 s.vertex_colors = self.vertex_colors(report_stats) 
    24125 File
    24126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24127 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24128 values, outside = self.volume_values() 
    24129 File
    24130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24131 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24132 return self.offset_values(v, n, tf) 
    24133 File
    24134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24135 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24136 values, outside = self.vertex_values(v, xf) 
    24137 File
    24138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24139 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24140 out_of_bounds_list = True) 
    24141 File
    24142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24143 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24144 subregion, step) 
    24145 File
    24146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24147 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24148 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24149 File
    24150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24151 packages/chimerax/map/volume.py", line 1243, in
    24152 matrix_indices_to_xyz_transform 
    24153 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24154 File
    24155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24156 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24157 r = self.subregion(step, subregion) 
    24158 File
    24159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24160 packages/chimerax/map/volume.py", line 1558, in subregion 
    24161 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24162 AttributeError: 'NoneType' object has no attribute 'size' 
    24163  
    24164 AttributeError: 'NoneType' object has no attribute 'size' 
    24165  
    24166 File
    24167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24168 packages/chimerax/map/volume.py", line 1558, in subregion 
    24169 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24170  
    24171 See log for complete Python traceback. 
    24172  
    24173 Traceback (most recent call last): 
    24174 File
    24175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24176 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24177 drew = self.draw_new_frame() 
    24178 File
    24179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24180 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24181 surface.update_clip_caps(view) 
    24182 File
    24183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24184 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24185 subdivision = settings.clipping_cap_subdivision) 
    24186 File
    24187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24188 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24189 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24190 File
    24191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24192 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24193 cm.set_geometry(varray, narray, tarray) 
    24194 File
    24195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24196 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24197 arv() 
    24198 File
    24199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24200 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24201 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24202 File
    24203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24204 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24205 s.vertex_colors = self.vertex_colors(report_stats) 
    24206 File
    24207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24208 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24209 values, outside = self.volume_values() 
    24210 File
    24211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24212 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24213 return self.offset_values(v, n, tf) 
    24214 File
    24215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24216 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24217 values, outside = self.vertex_values(v, xf) 
    24218 File
    24219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24220 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24221 out_of_bounds_list = True) 
    24222 File
    24223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24224 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24225 subregion, step) 
    24226 File
    24227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24228 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24229 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24230 File
    24231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24232 packages/chimerax/map/volume.py", line 1243, in
    24233 matrix_indices_to_xyz_transform 
    24234 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24235 File
    24236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24237 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24238 r = self.subregion(step, subregion) 
    24239 File
    24240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24241 packages/chimerax/map/volume.py", line 1558, in subregion 
    24242 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24243 AttributeError: 'NoneType' object has no attribute 'size' 
    24244  
    24245 AttributeError: 'NoneType' object has no attribute 'size' 
    24246  
    24247 File
    24248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24249 packages/chimerax/map/volume.py", line 1558, in subregion 
    24250 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24251  
    24252 See log for complete Python traceback. 
    24253  
    24254 Traceback (most recent call last): 
    24255 File
    24256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24257 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24258 drew = self.draw_new_frame() 
    24259 File
    24260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24261 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24262 surface.update_clip_caps(view) 
    24263 File
    24264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24265 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24266 subdivision = settings.clipping_cap_subdivision) 
    24267 File
    24268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24269 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24270 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24271 File
    24272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24273 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24274 cm.set_geometry(varray, narray, tarray) 
    24275 File
    24276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24277 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24278 arv() 
    24279 File
    24280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24281 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24282 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24283 File
    24284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24285 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24286 s.vertex_colors = self.vertex_colors(report_stats) 
    24287 File
    24288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24289 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24290 values, outside = self.volume_values() 
    24291 File
    24292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24293 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24294 return self.offset_values(v, n, tf) 
    24295 File
    24296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24297 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24298 values, outside = self.vertex_values(v, xf) 
    24299 File
    24300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24301 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24302 out_of_bounds_list = True) 
    24303 File
    24304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24305 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24306 subregion, step) 
    24307 File
    24308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24309 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24310 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24311 File
    24312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24313 packages/chimerax/map/volume.py", line 1243, in
    24314 matrix_indices_to_xyz_transform 
    24315 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24316 File
    24317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24318 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24319 r = self.subregion(step, subregion) 
    24320 File
    24321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24322 packages/chimerax/map/volume.py", line 1558, in subregion 
    24323 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24324 AttributeError: 'NoneType' object has no attribute 'size' 
    24325  
    24326 AttributeError: 'NoneType' object has no attribute 'size' 
    24327  
    24328 File
    24329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24330 packages/chimerax/map/volume.py", line 1558, in subregion 
    24331 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24332  
    24333 See log for complete Python traceback. 
    24334  
    24335 Traceback (most recent call last): 
    24336 File
    24337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24338 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24339 drew = self.draw_new_frame() 
    24340 File
    24341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24342 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24343 surface.update_clip_caps(view) 
    24344 File
    24345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24346 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24347 subdivision = settings.clipping_cap_subdivision) 
    24348 File
    24349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24350 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24351 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24352 File
    24353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24354 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24355 cm.set_geometry(varray, narray, tarray) 
    24356 File
    24357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24358 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24359 arv() 
    24360 File
    24361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24362 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24363 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24364 File
    24365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24366 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24367 s.vertex_colors = self.vertex_colors(report_stats) 
    24368 File
    24369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24370 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24371 values, outside = self.volume_values() 
    24372 File
    24373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24374 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24375 return self.offset_values(v, n, tf) 
    24376 File
    24377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24378 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24379 values, outside = self.vertex_values(v, xf) 
    24380 File
    24381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24382 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24383 out_of_bounds_list = True) 
    24384 File
    24385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24386 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24387 subregion, step) 
    24388 File
    24389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24390 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24391 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24392 File
    24393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24394 packages/chimerax/map/volume.py", line 1243, in
    24395 matrix_indices_to_xyz_transform 
    24396 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24397 File
    24398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24399 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24400 r = self.subregion(step, subregion) 
    24401 File
    24402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24403 packages/chimerax/map/volume.py", line 1558, in subregion 
    24404 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24405 AttributeError: 'NoneType' object has no attribute 'size' 
    24406  
    24407 AttributeError: 'NoneType' object has no attribute 'size' 
    24408  
    24409 File
    24410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24411 packages/chimerax/map/volume.py", line 1558, in subregion 
    24412 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24413  
    24414 See log for complete Python traceback. 
    24415  
    24416 Traceback (most recent call last): 
    24417 File
    24418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24419 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24420 drew = self.draw_new_frame() 
    24421 File
    24422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24423 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24424 surface.update_clip_caps(view) 
    24425 File
    24426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24427 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24428 subdivision = settings.clipping_cap_subdivision) 
    24429 File
    24430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24431 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24432 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24433 File
    24434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24435 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24436 cm.set_geometry(varray, narray, tarray) 
    24437 File
    24438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24439 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24440 arv() 
    24441 File
    24442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24443 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24444 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24445 File
    24446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24447 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24448 s.vertex_colors = self.vertex_colors(report_stats) 
    24449 File
    24450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24451 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24452 values, outside = self.volume_values() 
    24453 File
    24454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24455 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24456 return self.offset_values(v, n, tf) 
    24457 File
    24458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24459 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24460 values, outside = self.vertex_values(v, xf) 
    24461 File
    24462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24463 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24464 out_of_bounds_list = True) 
    24465 File
    24466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24467 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24468 subregion, step) 
    24469 File
    24470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24471 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24472 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24473 File
    24474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24475 packages/chimerax/map/volume.py", line 1243, in
    24476 matrix_indices_to_xyz_transform 
    24477 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24478 File
    24479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24480 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24481 r = self.subregion(step, subregion) 
    24482 File
    24483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24484 packages/chimerax/map/volume.py", line 1558, in subregion 
    24485 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24486 AttributeError: 'NoneType' object has no attribute 'size' 
    24487  
    24488 AttributeError: 'NoneType' object has no attribute 'size' 
    24489  
    24490 File
    24491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24492 packages/chimerax/map/volume.py", line 1558, in subregion 
    24493 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24494  
    24495 See log for complete Python traceback. 
    24496  
    24497 Traceback (most recent call last): 
    24498 File
    24499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24500 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24501 drew = self.draw_new_frame() 
    24502 File
    24503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24504 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24505 surface.update_clip_caps(view) 
    24506 File
    24507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24508 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24509 subdivision = settings.clipping_cap_subdivision) 
    24510 File
    24511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24512 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24513 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24514 File
    24515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24516 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24517 cm.set_geometry(varray, narray, tarray) 
    24518 File
    24519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24520 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24521 arv() 
    24522 File
    24523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24524 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24525 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24526 File
    24527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24528 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24529 s.vertex_colors = self.vertex_colors(report_stats) 
    24530 File
    24531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24532 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24533 values, outside = self.volume_values() 
    24534 File
    24535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24536 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24537 return self.offset_values(v, n, tf) 
    24538 File
    24539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24540 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24541 values, outside = self.vertex_values(v, xf) 
    24542 File
    24543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24544 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24545 out_of_bounds_list = True) 
    24546 File
    24547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24548 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24549 subregion, step) 
    24550 File
    24551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24552 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24553 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24554 File
    24555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24556 packages/chimerax/map/volume.py", line 1243, in
    24557 matrix_indices_to_xyz_transform 
    24558 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24559 File
    24560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24561 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24562 r = self.subregion(step, subregion) 
    24563 File
    24564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24565 packages/chimerax/map/volume.py", line 1558, in subregion 
    24566 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24567 AttributeError: 'NoneType' object has no attribute 'size' 
    24568  
    24569 AttributeError: 'NoneType' object has no attribute 'size' 
    24570  
    24571 File
    24572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24573 packages/chimerax/map/volume.py", line 1558, in subregion 
    24574 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24575  
    24576 See log for complete Python traceback. 
    24577  
    24578 Traceback (most recent call last): 
    24579 File
    24580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24581 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24582 drew = self.draw_new_frame() 
    24583 File
    24584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24585 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24586 surface.update_clip_caps(view) 
    24587 File
    24588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24589 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24590 subdivision = settings.clipping_cap_subdivision) 
    24591 File
    24592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24593 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24594 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24595 File
    24596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24597 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24598 cm.set_geometry(varray, narray, tarray) 
    24599 File
    24600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24601 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24602 arv() 
    24603 File
    24604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24605 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24606 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24607 File
    24608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24609 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24610 s.vertex_colors = self.vertex_colors(report_stats) 
    24611 File
    24612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24613 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24614 values, outside = self.volume_values() 
    24615 File
    24616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24617 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24618 return self.offset_values(v, n, tf) 
    24619 File
    24620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24621 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24622 values, outside = self.vertex_values(v, xf) 
    24623 File
    24624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24625 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24626 out_of_bounds_list = True) 
    24627 File
    24628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24629 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24630 subregion, step) 
    24631 File
    24632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24633 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24634 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24635 File
    24636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24637 packages/chimerax/map/volume.py", line 1243, in
    24638 matrix_indices_to_xyz_transform 
    24639 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24640 File
    24641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24642 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24643 r = self.subregion(step, subregion) 
    24644 File
    24645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24646 packages/chimerax/map/volume.py", line 1558, in subregion 
    24647 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24648 AttributeError: 'NoneType' object has no attribute 'size' 
    24649  
    24650 AttributeError: 'NoneType' object has no attribute 'size' 
    24651  
    24652 File
    24653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24654 packages/chimerax/map/volume.py", line 1558, in subregion 
    24655 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24656  
    24657 See log for complete Python traceback. 
    24658  
    24659 Traceback (most recent call last): 
    24660 File
    24661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24662 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24663 drew = self.draw_new_frame() 
    24664 File
    24665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24666 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24667 surface.update_clip_caps(view) 
    24668 File
    24669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24670 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24671 subdivision = settings.clipping_cap_subdivision) 
    24672 File
    24673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24674 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24675 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24676 File
    24677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24678 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24679 cm.set_geometry(varray, narray, tarray) 
    24680 File
    24681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24682 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24683 arv() 
    24684 File
    24685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24686 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24687 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24688 File
    24689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24690 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24691 s.vertex_colors = self.vertex_colors(report_stats) 
    24692 File
    24693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24694 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24695 values, outside = self.volume_values() 
    24696 File
    24697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24698 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24699 return self.offset_values(v, n, tf) 
    24700 File
    24701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24702 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24703 values, outside = self.vertex_values(v, xf) 
    24704 File
    24705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24706 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24707 out_of_bounds_list = True) 
    24708 File
    24709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24710 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24711 subregion, step) 
    24712 File
    24713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24714 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24715 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24716 File
    24717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24718 packages/chimerax/map/volume.py", line 1243, in
    24719 matrix_indices_to_xyz_transform 
    24720 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24721 File
    24722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24723 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24724 r = self.subregion(step, subregion) 
    24725 File
    24726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24727 packages/chimerax/map/volume.py", line 1558, in subregion 
    24728 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24729 AttributeError: 'NoneType' object has no attribute 'size' 
    24730  
    24731 AttributeError: 'NoneType' object has no attribute 'size' 
    24732  
    24733 File
    24734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24735 packages/chimerax/map/volume.py", line 1558, in subregion 
    24736 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24737  
    24738 See log for complete Python traceback. 
    24739  
    24740 Traceback (most recent call last): 
    24741 File
    24742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24743 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24744 drew = self.draw_new_frame() 
    24745 File
    24746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24747 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24748 surface.update_clip_caps(view) 
    24749 File
    24750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24751 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24752 subdivision = settings.clipping_cap_subdivision) 
    24753 File
    24754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24755 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24756 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24757 File
    24758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24759 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24760 cm.set_geometry(varray, narray, tarray) 
    24761 File
    24762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24763 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24764 arv() 
    24765 File
    24766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24767 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24768 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24769 File
    24770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24771 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24772 s.vertex_colors = self.vertex_colors(report_stats) 
    24773 File
    24774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24775 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24776 values, outside = self.volume_values() 
    24777 File
    24778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24779 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24780 return self.offset_values(v, n, tf) 
    24781 File
    24782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24783 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24784 values, outside = self.vertex_values(v, xf) 
    24785 File
    24786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24787 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24788 out_of_bounds_list = True) 
    24789 File
    24790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24791 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24792 subregion, step) 
    24793 File
    24794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24795 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24796 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24797 File
    24798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24799 packages/chimerax/map/volume.py", line 1243, in
    24800 matrix_indices_to_xyz_transform 
    24801 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24802 File
    24803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24804 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24805 r = self.subregion(step, subregion) 
    24806 File
    24807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24808 packages/chimerax/map/volume.py", line 1558, in subregion 
    24809 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24810 AttributeError: 'NoneType' object has no attribute 'size' 
    24811  
    24812 AttributeError: 'NoneType' object has no attribute 'size' 
    24813  
    24814 File
    24815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24816 packages/chimerax/map/volume.py", line 1558, in subregion 
    24817 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24818  
    24819 See log for complete Python traceback. 
    24820  
    24821 Traceback (most recent call last): 
    24822 File
    24823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24824 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24825 drew = self.draw_new_frame() 
    24826 File
    24827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24828 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24829 surface.update_clip_caps(view) 
    24830 File
    24831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24832 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24833 subdivision = settings.clipping_cap_subdivision) 
    24834 File
    24835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24836 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24837 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24838 File
    24839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24840 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24841 cm.set_geometry(varray, narray, tarray) 
    24842 File
    24843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24844 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24845 arv() 
    24846 File
    24847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24848 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24849 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24850 File
    24851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24852 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24853 s.vertex_colors = self.vertex_colors(report_stats) 
    24854 File
    24855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24856 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24857 values, outside = self.volume_values() 
    24858 File
    24859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24860 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24861 return self.offset_values(v, n, tf) 
    24862 File
    24863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24864 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24865 values, outside = self.vertex_values(v, xf) 
    24866 File
    24867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24868 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24869 out_of_bounds_list = True) 
    24870 File
    24871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24872 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24873 subregion, step) 
    24874 File
    24875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24876 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24877 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24878 File
    24879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24880 packages/chimerax/map/volume.py", line 1243, in
    24881 matrix_indices_to_xyz_transform 
    24882 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24883 File
    24884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24885 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24886 r = self.subregion(step, subregion) 
    24887 File
    24888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24889 packages/chimerax/map/volume.py", line 1558, in subregion 
    24890 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24891 AttributeError: 'NoneType' object has no attribute 'size' 
    24892  
    24893 AttributeError: 'NoneType' object has no attribute 'size' 
    24894  
    24895 File
    24896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24897 packages/chimerax/map/volume.py", line 1558, in subregion 
    24898 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24899  
    24900 See log for complete Python traceback. 
    24901  
    24902 Traceback (most recent call last): 
    24903 File
    24904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24905 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24906 drew = self.draw_new_frame() 
    24907 File
    24908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24909 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24910 surface.update_clip_caps(view) 
    24911 File
    24912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24913 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24914 subdivision = settings.clipping_cap_subdivision) 
    24915 File
    24916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24917 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24918 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    24919 File
    24920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24921 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    24922 cm.set_geometry(varray, narray, tarray) 
    24923 File
    24924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24925 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    24926 arv() 
    24927 File
    24928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24929 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    24930 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    24931 File
    24932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24933 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    24934 s.vertex_colors = self.vertex_colors(report_stats) 
    24935 File
    24936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24937 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    24938 values, outside = self.volume_values() 
    24939 File
    24940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24941 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    24942 return self.offset_values(v, n, tf) 
    24943 File
    24944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24945 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    24946 values, outside = self.vertex_values(v, xf) 
    24947 File
    24948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24949 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    24950 out_of_bounds_list = True) 
    24951 File
    24952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24953 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    24954 subregion, step) 
    24955 File
    24956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24957 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    24958 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    24959 File
    24960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24961 packages/chimerax/map/volume.py", line 1243, in
    24962 matrix_indices_to_xyz_transform 
    24963 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    24964 File
    24965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24966 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    24967 r = self.subregion(step, subregion) 
    24968 File
    24969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24970 packages/chimerax/map/volume.py", line 1558, in subregion 
    24971 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24972 AttributeError: 'NoneType' object has no attribute 'size' 
    24973  
    24974 AttributeError: 'NoneType' object has no attribute 'size' 
    24975  
    24976 File
    24977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24978 packages/chimerax/map/volume.py", line 1558, in subregion 
    24979 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    24980  
    24981 See log for complete Python traceback. 
    24982  
    24983 Traceback (most recent call last): 
    24984 File
    24985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24986 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    24987 drew = self.draw_new_frame() 
    24988 File
    24989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24990 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    24991 surface.update_clip_caps(view) 
    24992 File
    24993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24994 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    24995 subdivision = settings.clipping_cap_subdivision) 
    24996 File
    24997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    24998 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    24999 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25000 File
    25001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25002 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25003 cm.set_geometry(varray, narray, tarray) 
    25004 File
    25005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25006 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25007 arv() 
    25008 File
    25009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25010 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25011 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25012 File
    25013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25014 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25015 s.vertex_colors = self.vertex_colors(report_stats) 
    25016 File
    25017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25018 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25019 values, outside = self.volume_values() 
    25020 File
    25021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25022 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25023 return self.offset_values(v, n, tf) 
    25024 File
    25025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25026 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25027 values, outside = self.vertex_values(v, xf) 
    25028 File
    25029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25030 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25031 out_of_bounds_list = True) 
    25032 File
    25033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25034 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25035 subregion, step) 
    25036 File
    25037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25038 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25039 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25040 File
    25041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25042 packages/chimerax/map/volume.py", line 1243, in
    25043 matrix_indices_to_xyz_transform 
    25044 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25045 File
    25046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25047 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25048 r = self.subregion(step, subregion) 
    25049 File
    25050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25051 packages/chimerax/map/volume.py", line 1558, in subregion 
    25052 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25053 AttributeError: 'NoneType' object has no attribute 'size' 
    25054  
    25055 AttributeError: 'NoneType' object has no attribute 'size' 
    25056  
    25057 File
    25058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25059 packages/chimerax/map/volume.py", line 1558, in subregion 
    25060 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25061  
    25062 See log for complete Python traceback. 
    25063  
    25064 Traceback (most recent call last): 
    25065 File
    25066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25067 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25068 drew = self.draw_new_frame() 
    25069 File
    25070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25071 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25072 surface.update_clip_caps(view) 
    25073 File
    25074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25075 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25076 subdivision = settings.clipping_cap_subdivision) 
    25077 File
    25078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25079 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25080 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25081 File
    25082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25083 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25084 cm.set_geometry(varray, narray, tarray) 
    25085 File
    25086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25087 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25088 arv() 
    25089 File
    25090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25091 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25092 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25093 File
    25094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25095 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25096 s.vertex_colors = self.vertex_colors(report_stats) 
    25097 File
    25098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25099 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25100 values, outside = self.volume_values() 
    25101 File
    25102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25103 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25104 return self.offset_values(v, n, tf) 
    25105 File
    25106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25107 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25108 values, outside = self.vertex_values(v, xf) 
    25109 File
    25110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25111 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25112 out_of_bounds_list = True) 
    25113 File
    25114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25115 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25116 subregion, step) 
    25117 File
    25118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25119 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25120 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25121 File
    25122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25123 packages/chimerax/map/volume.py", line 1243, in
    25124 matrix_indices_to_xyz_transform 
    25125 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25126 File
    25127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25128 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25129 r = self.subregion(step, subregion) 
    25130 File
    25131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25132 packages/chimerax/map/volume.py", line 1558, in subregion 
    25133 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25134 AttributeError: 'NoneType' object has no attribute 'size' 
    25135  
    25136 AttributeError: 'NoneType' object has no attribute 'size' 
    25137  
    25138 File
    25139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25140 packages/chimerax/map/volume.py", line 1558, in subregion 
    25141 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25142  
    25143 See log for complete Python traceback. 
    25144  
    25145 Traceback (most recent call last): 
    25146 File
    25147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25148 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25149 drew = self.draw_new_frame() 
    25150 File
    25151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25152 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25153 surface.update_clip_caps(view) 
    25154 File
    25155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25156 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25157 subdivision = settings.clipping_cap_subdivision) 
    25158 File
    25159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25160 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25161 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25162 File
    25163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25164 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25165 cm.set_geometry(varray, narray, tarray) 
    25166 File
    25167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25168 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25169 arv() 
    25170 File
    25171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25172 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25173 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25174 File
    25175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25176 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25177 s.vertex_colors = self.vertex_colors(report_stats) 
    25178 File
    25179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25180 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25181 values, outside = self.volume_values() 
    25182 File
    25183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25184 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25185 return self.offset_values(v, n, tf) 
    25186 File
    25187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25188 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25189 values, outside = self.vertex_values(v, xf) 
    25190 File
    25191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25192 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25193 out_of_bounds_list = True) 
    25194 File
    25195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25196 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25197 subregion, step) 
    25198 File
    25199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25200 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25201 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25202 File
    25203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25204 packages/chimerax/map/volume.py", line 1243, in
    25205 matrix_indices_to_xyz_transform 
    25206 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25207 File
    25208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25209 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25210 r = self.subregion(step, subregion) 
    25211 File
    25212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25213 packages/chimerax/map/volume.py", line 1558, in subregion 
    25214 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25215 AttributeError: 'NoneType' object has no attribute 'size' 
    25216  
    25217 AttributeError: 'NoneType' object has no attribute 'size' 
    25218  
    25219 File
    25220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25221 packages/chimerax/map/volume.py", line 1558, in subregion 
    25222 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25223  
    25224 See log for complete Python traceback. 
    25225  
    25226 Traceback (most recent call last): 
    25227 File
    25228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25229 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25230 drew = self.draw_new_frame() 
    25231 File
    25232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25233 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25234 surface.update_clip_caps(view) 
    25235 File
    25236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25237 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25238 subdivision = settings.clipping_cap_subdivision) 
    25239 File
    25240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25241 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25242 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25243 File
    25244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25245 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25246 cm.set_geometry(varray, narray, tarray) 
    25247 File
    25248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25249 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25250 arv() 
    25251 File
    25252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25253 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25254 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25255 File
    25256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25257 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25258 s.vertex_colors = self.vertex_colors(report_stats) 
    25259 File
    25260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25261 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25262 values, outside = self.volume_values() 
    25263 File
    25264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25265 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25266 return self.offset_values(v, n, tf) 
    25267 File
    25268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25269 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25270 values, outside = self.vertex_values(v, xf) 
    25271 File
    25272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25273 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25274 out_of_bounds_list = True) 
    25275 File
    25276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25277 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25278 subregion, step) 
    25279 File
    25280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25281 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25282 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25283 File
    25284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25285 packages/chimerax/map/volume.py", line 1243, in
    25286 matrix_indices_to_xyz_transform 
    25287 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25288 File
    25289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25290 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25291 r = self.subregion(step, subregion) 
    25292 File
    25293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25294 packages/chimerax/map/volume.py", line 1558, in subregion 
    25295 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25296 AttributeError: 'NoneType' object has no attribute 'size' 
    25297  
    25298 AttributeError: 'NoneType' object has no attribute 'size' 
    25299  
    25300 File
    25301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25302 packages/chimerax/map/volume.py", line 1558, in subregion 
    25303 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25304  
    25305 See log for complete Python traceback. 
    25306  
    25307 Traceback (most recent call last): 
    25308 File
    25309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25310 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25311 drew = self.draw_new_frame() 
    25312 File
    25313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25314 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25315 surface.update_clip_caps(view) 
    25316 File
    25317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25318 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25319 subdivision = settings.clipping_cap_subdivision) 
    25320 File
    25321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25322 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25323 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25324 File
    25325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25326 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25327 cm.set_geometry(varray, narray, tarray) 
    25328 File
    25329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25330 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25331 arv() 
    25332 File
    25333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25334 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25335 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25336 File
    25337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25338 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25339 s.vertex_colors = self.vertex_colors(report_stats) 
    25340 File
    25341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25342 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25343 values, outside = self.volume_values() 
    25344 File
    25345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25346 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25347 return self.offset_values(v, n, tf) 
    25348 File
    25349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25350 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25351 values, outside = self.vertex_values(v, xf) 
    25352 File
    25353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25354 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25355 out_of_bounds_list = True) 
    25356 File
    25357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25358 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25359 subregion, step) 
    25360 File
    25361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25362 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25363 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25364 File
    25365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25366 packages/chimerax/map/volume.py", line 1243, in
    25367 matrix_indices_to_xyz_transform 
    25368 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25369 File
    25370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25371 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25372 r = self.subregion(step, subregion) 
    25373 File
    25374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25375 packages/chimerax/map/volume.py", line 1558, in subregion 
    25376 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25377 AttributeError: 'NoneType' object has no attribute 'size' 
    25378  
    25379 AttributeError: 'NoneType' object has no attribute 'size' 
    25380  
    25381 File
    25382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25383 packages/chimerax/map/volume.py", line 1558, in subregion 
    25384 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25385  
    25386 See log for complete Python traceback. 
    25387  
    25388 Traceback (most recent call last): 
    25389 File
    25390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25391 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25392 drew = self.draw_new_frame() 
    25393 File
    25394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25395 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25396 surface.update_clip_caps(view) 
    25397 File
    25398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25399 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25400 subdivision = settings.clipping_cap_subdivision) 
    25401 File
    25402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25403 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25404 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25405 File
    25406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25407 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25408 cm.set_geometry(varray, narray, tarray) 
    25409 File
    25410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25411 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25412 arv() 
    25413 File
    25414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25415 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25416 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25417 File
    25418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25419 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25420 s.vertex_colors = self.vertex_colors(report_stats) 
    25421 File
    25422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25423 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25424 values, outside = self.volume_values() 
    25425 File
    25426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25427 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25428 return self.offset_values(v, n, tf) 
    25429 File
    25430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25431 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25432 values, outside = self.vertex_values(v, xf) 
    25433 File
    25434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25435 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25436 out_of_bounds_list = True) 
    25437 File
    25438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25439 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25440 subregion, step) 
    25441 File
    25442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25443 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25444 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25445 File
    25446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25447 packages/chimerax/map/volume.py", line 1243, in
    25448 matrix_indices_to_xyz_transform 
    25449 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25450 File
    25451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25452 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25453 r = self.subregion(step, subregion) 
    25454 File
    25455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25456 packages/chimerax/map/volume.py", line 1558, in subregion 
    25457 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25458 AttributeError: 'NoneType' object has no attribute 'size' 
    25459  
    25460 AttributeError: 'NoneType' object has no attribute 'size' 
    25461  
    25462 File
    25463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25464 packages/chimerax/map/volume.py", line 1558, in subregion 
    25465 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25466  
    25467 See log for complete Python traceback. 
    25468  
    25469 Traceback (most recent call last): 
    25470 File
    25471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25472 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25473 drew = self.draw_new_frame() 
    25474 File
    25475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25476 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25477 surface.update_clip_caps(view) 
    25478 File
    25479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25480 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25481 subdivision = settings.clipping_cap_subdivision) 
    25482 File
    25483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25484 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25485 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25486 File
    25487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25488 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25489 cm.set_geometry(varray, narray, tarray) 
    25490 File
    25491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25492 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25493 arv() 
    25494 File
    25495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25496 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25497 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25498 File
    25499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25500 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25501 s.vertex_colors = self.vertex_colors(report_stats) 
    25502 File
    25503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25504 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25505 values, outside = self.volume_values() 
    25506 File
    25507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25508 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25509 return self.offset_values(v, n, tf) 
    25510 File
    25511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25512 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25513 values, outside = self.vertex_values(v, xf) 
    25514 File
    25515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25516 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25517 out_of_bounds_list = True) 
    25518 File
    25519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25520 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25521 subregion, step) 
    25522 File
    25523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25524 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25525 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25526 File
    25527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25528 packages/chimerax/map/volume.py", line 1243, in
    25529 matrix_indices_to_xyz_transform 
    25530 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25531 File
    25532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25533 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25534 r = self.subregion(step, subregion) 
    25535 File
    25536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25537 packages/chimerax/map/volume.py", line 1558, in subregion 
    25538 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25539 AttributeError: 'NoneType' object has no attribute 'size' 
    25540  
    25541 AttributeError: 'NoneType' object has no attribute 'size' 
    25542  
    25543 File
    25544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25545 packages/chimerax/map/volume.py", line 1558, in subregion 
    25546 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25547  
    25548 See log for complete Python traceback. 
    25549  
    25550 Traceback (most recent call last): 
    25551 File
    25552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25553 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25554 drew = self.draw_new_frame() 
    25555 File
    25556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25557 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25558 surface.update_clip_caps(view) 
    25559 File
    25560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25561 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25562 subdivision = settings.clipping_cap_subdivision) 
    25563 File
    25564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25565 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25566 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25567 File
    25568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25569 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25570 cm.set_geometry(varray, narray, tarray) 
    25571 File
    25572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25573 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25574 arv() 
    25575 File
    25576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25577 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25578 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25579 File
    25580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25581 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25582 s.vertex_colors = self.vertex_colors(report_stats) 
    25583 File
    25584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25585 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25586 values, outside = self.volume_values() 
    25587 File
    25588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25589 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25590 return self.offset_values(v, n, tf) 
    25591 File
    25592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25593 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25594 values, outside = self.vertex_values(v, xf) 
    25595 File
    25596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25597 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25598 out_of_bounds_list = True) 
    25599 File
    25600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25601 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25602 subregion, step) 
    25603 File
    25604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25605 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25606 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25607 File
    25608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25609 packages/chimerax/map/volume.py", line 1243, in
    25610 matrix_indices_to_xyz_transform 
    25611 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25612 File
    25613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25614 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25615 r = self.subregion(step, subregion) 
    25616 File
    25617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25618 packages/chimerax/map/volume.py", line 1558, in subregion 
    25619 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25620 AttributeError: 'NoneType' object has no attribute 'size' 
    25621  
    25622 AttributeError: 'NoneType' object has no attribute 'size' 
    25623  
    25624 File
    25625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25626 packages/chimerax/map/volume.py", line 1558, in subregion 
    25627 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25628  
    25629 See log for complete Python traceback. 
    25630  
    25631 Traceback (most recent call last): 
    25632 File
    25633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25634 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25635 drew = self.draw_new_frame() 
    25636 File
    25637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25638 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25639 surface.update_clip_caps(view) 
    25640 File
    25641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25642 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25643 subdivision = settings.clipping_cap_subdivision) 
    25644 File
    25645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25646 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25647 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25648 File
    25649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25650 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25651 cm.set_geometry(varray, narray, tarray) 
    25652 File
    25653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25654 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25655 arv() 
    25656 File
    25657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25658 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25659 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25660 File
    25661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25662 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25663 s.vertex_colors = self.vertex_colors(report_stats) 
    25664 File
    25665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25666 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25667 values, outside = self.volume_values() 
    25668 File
    25669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25670 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25671 return self.offset_values(v, n, tf) 
    25672 File
    25673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25674 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25675 values, outside = self.vertex_values(v, xf) 
    25676 File
    25677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25678 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25679 out_of_bounds_list = True) 
    25680 File
    25681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25682 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25683 subregion, step) 
    25684 File
    25685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25686 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25687 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25688 File
    25689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25690 packages/chimerax/map/volume.py", line 1243, in
    25691 matrix_indices_to_xyz_transform 
    25692 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25693 File
    25694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25695 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25696 r = self.subregion(step, subregion) 
    25697 File
    25698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25699 packages/chimerax/map/volume.py", line 1558, in subregion 
    25700 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25701 AttributeError: 'NoneType' object has no attribute 'size' 
    25702  
    25703 AttributeError: 'NoneType' object has no attribute 'size' 
    25704  
    25705 File
    25706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25707 packages/chimerax/map/volume.py", line 1558, in subregion 
    25708 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25709  
    25710 See log for complete Python traceback. 
    25711  
    25712 Traceback (most recent call last): 
    25713 File
    25714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25715 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25716 drew = self.draw_new_frame() 
    25717 File
    25718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25719 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25720 surface.update_clip_caps(view) 
    25721 File
    25722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25723 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25724 subdivision = settings.clipping_cap_subdivision) 
    25725 File
    25726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25727 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25728 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25729 File
    25730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25731 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25732 cm.set_geometry(varray, narray, tarray) 
    25733 File
    25734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25735 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25736 arv() 
    25737 File
    25738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25739 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25740 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25741 File
    25742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25743 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25744 s.vertex_colors = self.vertex_colors(report_stats) 
    25745 File
    25746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25747 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25748 values, outside = self.volume_values() 
    25749 File
    25750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25751 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25752 return self.offset_values(v, n, tf) 
    25753 File
    25754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25755 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25756 values, outside = self.vertex_values(v, xf) 
    25757 File
    25758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25759 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25760 out_of_bounds_list = True) 
    25761 File
    25762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25763 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25764 subregion, step) 
    25765 File
    25766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25767 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25768 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25769 File
    25770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25771 packages/chimerax/map/volume.py", line 1243, in
    25772 matrix_indices_to_xyz_transform 
    25773 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25774 File
    25775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25776 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25777 r = self.subregion(step, subregion) 
    25778 File
    25779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25780 packages/chimerax/map/volume.py", line 1558, in subregion 
    25781 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25782 AttributeError: 'NoneType' object has no attribute 'size' 
    25783  
    25784 AttributeError: 'NoneType' object has no attribute 'size' 
    25785  
    25786 File
    25787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25788 packages/chimerax/map/volume.py", line 1558, in subregion 
    25789 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25790  
    25791 See log for complete Python traceback. 
    25792  
    25793 Traceback (most recent call last): 
    25794 File
    25795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25796 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25797 drew = self.draw_new_frame() 
    25798 File
    25799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25800 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25801 surface.update_clip_caps(view) 
    25802 File
    25803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25804 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25805 subdivision = settings.clipping_cap_subdivision) 
    25806 File
    25807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25808 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25809 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25810 File
    25811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25812 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25813 cm.set_geometry(varray, narray, tarray) 
    25814 File
    25815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25816 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25817 arv() 
    25818 File
    25819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25820 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25821 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25822 File
    25823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25824 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25825 s.vertex_colors = self.vertex_colors(report_stats) 
    25826 File
    25827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25828 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25829 values, outside = self.volume_values() 
    25830 File
    25831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25832 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25833 return self.offset_values(v, n, tf) 
    25834 File
    25835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25836 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25837 values, outside = self.vertex_values(v, xf) 
    25838 File
    25839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25840 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25841 out_of_bounds_list = True) 
    25842 File
    25843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25844 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25845 subregion, step) 
    25846 File
    25847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25848 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25849 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25850 File
    25851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25852 packages/chimerax/map/volume.py", line 1243, in
    25853 matrix_indices_to_xyz_transform 
    25854 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25855 File
    25856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25857 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25858 r = self.subregion(step, subregion) 
    25859 File
    25860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25861 packages/chimerax/map/volume.py", line 1558, in subregion 
    25862 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25863 AttributeError: 'NoneType' object has no attribute 'size' 
    25864  
    25865 AttributeError: 'NoneType' object has no attribute 'size' 
    25866  
    25867 File
    25868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25869 packages/chimerax/map/volume.py", line 1558, in subregion 
    25870 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25871  
    25872 See log for complete Python traceback. 
    25873  
    25874 Traceback (most recent call last): 
    25875 File
    25876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25877 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25878 drew = self.draw_new_frame() 
    25879 File
    25880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25881 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25882 surface.update_clip_caps(view) 
    25883 File
    25884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25885 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25886 subdivision = settings.clipping_cap_subdivision) 
    25887 File
    25888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25889 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25890 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25891 File
    25892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25893 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25894 cm.set_geometry(varray, narray, tarray) 
    25895 File
    25896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25897 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25898 arv() 
    25899 File
    25900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25901 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25902 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25903 File
    25904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25905 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25906 s.vertex_colors = self.vertex_colors(report_stats) 
    25907 File
    25908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25909 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25910 values, outside = self.volume_values() 
    25911 File
    25912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25913 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25914 return self.offset_values(v, n, tf) 
    25915 File
    25916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25917 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25918 values, outside = self.vertex_values(v, xf) 
    25919 File
    25920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25921 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    25922 out_of_bounds_list = True) 
    25923 File
    25924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25925 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    25926 subregion, step) 
    25927 File
    25928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25929 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    25930 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    25931 File
    25932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25933 packages/chimerax/map/volume.py", line 1243, in
    25934 matrix_indices_to_xyz_transform 
    25935 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    25936 File
    25937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25938 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    25939 r = self.subregion(step, subregion) 
    25940 File
    25941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25942 packages/chimerax/map/volume.py", line 1558, in subregion 
    25943 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25944 AttributeError: 'NoneType' object has no attribute 'size' 
    25945  
    25946 AttributeError: 'NoneType' object has no attribute 'size' 
    25947  
    25948 File
    25949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25950 packages/chimerax/map/volume.py", line 1558, in subregion 
    25951 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    25952  
    25953 See log for complete Python traceback. 
    25954  
    25955 Traceback (most recent call last): 
    25956 File
    25957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25958 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    25959 drew = self.draw_new_frame() 
    25960 File
    25961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25962 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    25963 surface.update_clip_caps(view) 
    25964 File
    25965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25966 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    25967 subdivision = settings.clipping_cap_subdivision) 
    25968 File
    25969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25970 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    25971 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    25972 File
    25973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25974 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    25975 cm.set_geometry(varray, narray, tarray) 
    25976 File
    25977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25978 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    25979 arv() 
    25980 File
    25981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25982 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    25983 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    25984 File
    25985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25986 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    25987 s.vertex_colors = self.vertex_colors(report_stats) 
    25988 File
    25989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25990 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    25991 values, outside = self.volume_values() 
    25992 File
    25993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25994 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    25995 return self.offset_values(v, n, tf) 
    25996 File
    25997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    25998 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    25999 values, outside = self.vertex_values(v, xf) 
    26000 File
    26001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26002 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26003 out_of_bounds_list = True) 
    26004 File
    26005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26006 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26007 subregion, step) 
    26008 File
    26009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26010 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26011 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26012 File
    26013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26014 packages/chimerax/map/volume.py", line 1243, in
    26015 matrix_indices_to_xyz_transform 
    26016 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26017 File
    26018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26019 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26020 r = self.subregion(step, subregion) 
    26021 File
    26022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26023 packages/chimerax/map/volume.py", line 1558, in subregion 
    26024 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26025 AttributeError: 'NoneType' object has no attribute 'size' 
    26026  
    26027 AttributeError: 'NoneType' object has no attribute 'size' 
    26028  
    26029 File
    26030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26031 packages/chimerax/map/volume.py", line 1558, in subregion 
    26032 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26033  
    26034 See log for complete Python traceback. 
    26035  
    26036 Traceback (most recent call last): 
    26037 File
    26038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26039 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26040 drew = self.draw_new_frame() 
    26041 File
    26042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26043 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26044 surface.update_clip_caps(view) 
    26045 File
    26046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26047 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26048 subdivision = settings.clipping_cap_subdivision) 
    26049 File
    26050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26051 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26052 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26053 File
    26054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26055 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26056 cm.set_geometry(varray, narray, tarray) 
    26057 File
    26058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26059 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26060 arv() 
    26061 File
    26062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26063 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26064 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26065 File
    26066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26067 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26068 s.vertex_colors = self.vertex_colors(report_stats) 
    26069 File
    26070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26071 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26072 values, outside = self.volume_values() 
    26073 File
    26074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26075 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26076 return self.offset_values(v, n, tf) 
    26077 File
    26078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26079 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26080 values, outside = self.vertex_values(v, xf) 
    26081 File
    26082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26083 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26084 out_of_bounds_list = True) 
    26085 File
    26086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26087 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26088 subregion, step) 
    26089 File
    26090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26091 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26092 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26093 File
    26094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26095 packages/chimerax/map/volume.py", line 1243, in
    26096 matrix_indices_to_xyz_transform 
    26097 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26098 File
    26099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26100 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26101 r = self.subregion(step, subregion) 
    26102 File
    26103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26104 packages/chimerax/map/volume.py", line 1558, in subregion 
    26105 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26106 AttributeError: 'NoneType' object has no attribute 'size' 
    26107  
    26108 AttributeError: 'NoneType' object has no attribute 'size' 
    26109  
    26110 File
    26111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26112 packages/chimerax/map/volume.py", line 1558, in subregion 
    26113 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26114  
    26115 See log for complete Python traceback. 
    26116  
    26117 Traceback (most recent call last): 
    26118 File
    26119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26120 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26121 drew = self.draw_new_frame() 
    26122 File
    26123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26124 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26125 surface.update_clip_caps(view) 
    26126 File
    26127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26128 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26129 subdivision = settings.clipping_cap_subdivision) 
    26130 File
    26131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26132 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26133 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26134 File
    26135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26136 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26137 cm.set_geometry(varray, narray, tarray) 
    26138 File
    26139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26140 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26141 arv() 
    26142 File
    26143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26144 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26145 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26146 File
    26147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26148 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26149 s.vertex_colors = self.vertex_colors(report_stats) 
    26150 File
    26151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26152 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26153 values, outside = self.volume_values() 
    26154 File
    26155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26156 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26157 return self.offset_values(v, n, tf) 
    26158 File
    26159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26160 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26161 values, outside = self.vertex_values(v, xf) 
    26162 File
    26163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26164 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26165 out_of_bounds_list = True) 
    26166 File
    26167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26168 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26169 subregion, step) 
    26170 File
    26171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26172 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26173 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26174 File
    26175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26176 packages/chimerax/map/volume.py", line 1243, in
    26177 matrix_indices_to_xyz_transform 
    26178 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26179 File
    26180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26181 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26182 r = self.subregion(step, subregion) 
    26183 File
    26184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26185 packages/chimerax/map/volume.py", line 1558, in subregion 
    26186 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26187 AttributeError: 'NoneType' object has no attribute 'size' 
    26188  
    26189 AttributeError: 'NoneType' object has no attribute 'size' 
    26190  
    26191 File
    26192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26193 packages/chimerax/map/volume.py", line 1558, in subregion 
    26194 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26195  
    26196 See log for complete Python traceback. 
    26197  
    26198 Traceback (most recent call last): 
    26199 File
    26200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26201 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26202 drew = self.draw_new_frame() 
    26203 File
    26204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26205 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26206 surface.update_clip_caps(view) 
    26207 File
    26208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26209 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26210 subdivision = settings.clipping_cap_subdivision) 
    26211 File
    26212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26213 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26214 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26215 File
    26216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26217 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26218 cm.set_geometry(varray, narray, tarray) 
    26219 File
    26220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26221 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26222 arv() 
    26223 File
    26224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26225 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26226 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26227 File
    26228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26229 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26230 s.vertex_colors = self.vertex_colors(report_stats) 
    26231 File
    26232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26233 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26234 values, outside = self.volume_values() 
    26235 File
    26236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26237 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26238 return self.offset_values(v, n, tf) 
    26239 File
    26240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26241 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26242 values, outside = self.vertex_values(v, xf) 
    26243 File
    26244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26245 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26246 out_of_bounds_list = True) 
    26247 File
    26248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26249 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26250 subregion, step) 
    26251 File
    26252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26253 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26254 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26255 File
    26256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26257 packages/chimerax/map/volume.py", line 1243, in
    26258 matrix_indices_to_xyz_transform 
    26259 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26260 File
    26261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26262 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26263 r = self.subregion(step, subregion) 
    26264 File
    26265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26266 packages/chimerax/map/volume.py", line 1558, in subregion 
    26267 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26268 AttributeError: 'NoneType' object has no attribute 'size' 
    26269  
    26270 AttributeError: 'NoneType' object has no attribute 'size' 
    26271  
    26272 File
    26273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26274 packages/chimerax/map/volume.py", line 1558, in subregion 
    26275 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26276  
    26277 See log for complete Python traceback. 
    26278  
    26279 Traceback (most recent call last): 
    26280 File
    26281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26282 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26283 drew = self.draw_new_frame() 
    26284 File
    26285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26286 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26287 surface.update_clip_caps(view) 
    26288 File
    26289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26290 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26291 subdivision = settings.clipping_cap_subdivision) 
    26292 File
    26293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26294 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26295 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26296 File
    26297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26298 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26299 cm.set_geometry(varray, narray, tarray) 
    26300 File
    26301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26302 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26303 arv() 
    26304 File
    26305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26306 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26307 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26308 File
    26309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26310 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26311 s.vertex_colors = self.vertex_colors(report_stats) 
    26312 File
    26313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26314 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26315 values, outside = self.volume_values() 
    26316 File
    26317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26318 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26319 return self.offset_values(v, n, tf) 
    26320 File
    26321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26322 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26323 values, outside = self.vertex_values(v, xf) 
    26324 File
    26325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26326 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26327 out_of_bounds_list = True) 
    26328 File
    26329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26330 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26331 subregion, step) 
    26332 File
    26333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26334 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26335 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26336 File
    26337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26338 packages/chimerax/map/volume.py", line 1243, in
    26339 matrix_indices_to_xyz_transform 
    26340 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26341 File
    26342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26343 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26344 r = self.subregion(step, subregion) 
    26345 File
    26346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26347 packages/chimerax/map/volume.py", line 1558, in subregion 
    26348 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26349 AttributeError: 'NoneType' object has no attribute 'size' 
    26350  
    26351 AttributeError: 'NoneType' object has no attribute 'size' 
    26352  
    26353 File
    26354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26355 packages/chimerax/map/volume.py", line 1558, in subregion 
    26356 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26357  
    26358 See log for complete Python traceback. 
    26359  
    26360 Traceback (most recent call last): 
    26361 File
    26362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26363 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26364 drew = self.draw_new_frame() 
    26365 File
    26366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26367 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26368 surface.update_clip_caps(view) 
    26369 File
    26370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26371 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26372 subdivision = settings.clipping_cap_subdivision) 
    26373 File
    26374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26375 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26376 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26377 File
    26378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26379 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26380 cm.set_geometry(varray, narray, tarray) 
    26381 File
    26382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26383 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26384 arv() 
    26385 File
    26386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26387 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26388 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26389 File
    26390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26391 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26392 s.vertex_colors = self.vertex_colors(report_stats) 
    26393 File
    26394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26395 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26396 values, outside = self.volume_values() 
    26397 File
    26398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26399 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26400 return self.offset_values(v, n, tf) 
    26401 File
    26402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26403 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26404 values, outside = self.vertex_values(v, xf) 
    26405 File
    26406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26407 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26408 out_of_bounds_list = True) 
    26409 File
    26410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26411 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26412 subregion, step) 
    26413 File
    26414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26415 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26416 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26417 File
    26418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26419 packages/chimerax/map/volume.py", line 1243, in
    26420 matrix_indices_to_xyz_transform 
    26421 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26422 File
    26423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26424 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26425 r = self.subregion(step, subregion) 
    26426 File
    26427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26428 packages/chimerax/map/volume.py", line 1558, in subregion 
    26429 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26430 AttributeError: 'NoneType' object has no attribute 'size' 
    26431  
    26432 AttributeError: 'NoneType' object has no attribute 'size' 
    26433  
    26434 File
    26435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26436 packages/chimerax/map/volume.py", line 1558, in subregion 
    26437 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26438  
    26439 See log for complete Python traceback. 
    26440  
    26441 Traceback (most recent call last): 
    26442 File
    26443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26444 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26445 drew = self.draw_new_frame() 
    26446 File
    26447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26448 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26449 surface.update_clip_caps(view) 
    26450 File
    26451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26452 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26453 subdivision = settings.clipping_cap_subdivision) 
    26454 File
    26455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26456 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26457 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26458 File
    26459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26460 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26461 cm.set_geometry(varray, narray, tarray) 
    26462 File
    26463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26464 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26465 arv() 
    26466 File
    26467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26468 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26469 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26470 File
    26471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26472 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26473 s.vertex_colors = self.vertex_colors(report_stats) 
    26474 File
    26475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26476 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26477 values, outside = self.volume_values() 
    26478 File
    26479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26480 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26481 return self.offset_values(v, n, tf) 
    26482 File
    26483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26484 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26485 values, outside = self.vertex_values(v, xf) 
    26486 File
    26487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26488 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26489 out_of_bounds_list = True) 
    26490 File
    26491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26492 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26493 subregion, step) 
    26494 File
    26495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26496 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26497 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26498 File
    26499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26500 packages/chimerax/map/volume.py", line 1243, in
    26501 matrix_indices_to_xyz_transform 
    26502 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26503 File
    26504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26505 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26506 r = self.subregion(step, subregion) 
    26507 File
    26508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26509 packages/chimerax/map/volume.py", line 1558, in subregion 
    26510 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26511 AttributeError: 'NoneType' object has no attribute 'size' 
    26512  
    26513 AttributeError: 'NoneType' object has no attribute 'size' 
    26514  
    26515 File
    26516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26517 packages/chimerax/map/volume.py", line 1558, in subregion 
    26518 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26519  
    26520 See log for complete Python traceback. 
    26521  
    26522 Traceback (most recent call last): 
    26523 File
    26524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26525 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26526 drew = self.draw_new_frame() 
    26527 File
    26528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26529 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26530 surface.update_clip_caps(view) 
    26531 File
    26532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26533 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26534 subdivision = settings.clipping_cap_subdivision) 
    26535 File
    26536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26537 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26538 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26539 File
    26540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26541 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26542 cm.set_geometry(varray, narray, tarray) 
    26543 File
    26544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26545 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26546 arv() 
    26547 File
    26548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26549 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26550 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26551 File
    26552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26553 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26554 s.vertex_colors = self.vertex_colors(report_stats) 
    26555 File
    26556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26557 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26558 values, outside = self.volume_values() 
    26559 File
    26560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26561 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26562 return self.offset_values(v, n, tf) 
    26563 File
    26564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26565 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26566 values, outside = self.vertex_values(v, xf) 
    26567 File
    26568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26569 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26570 out_of_bounds_list = True) 
    26571 File
    26572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26573 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26574 subregion, step) 
    26575 File
    26576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26577 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26578 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26579 File
    26580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26581 packages/chimerax/map/volume.py", line 1243, in
    26582 matrix_indices_to_xyz_transform 
    26583 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26584 File
    26585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26586 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26587 r = self.subregion(step, subregion) 
    26588 File
    26589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26590 packages/chimerax/map/volume.py", line 1558, in subregion 
    26591 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26592 AttributeError: 'NoneType' object has no attribute 'size' 
    26593  
    26594 AttributeError: 'NoneType' object has no attribute 'size' 
    26595  
    26596 File
    26597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26598 packages/chimerax/map/volume.py", line 1558, in subregion 
    26599 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26600  
    26601 See log for complete Python traceback. 
    26602  
    26603 Traceback (most recent call last): 
    26604 File
    26605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26606 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26607 drew = self.draw_new_frame() 
    26608 File
    26609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26610 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26611 surface.update_clip_caps(view) 
    26612 File
    26613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26614 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26615 subdivision = settings.clipping_cap_subdivision) 
    26616 File
    26617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26618 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26619 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26620 File
    26621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26622 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26623 cm.set_geometry(varray, narray, tarray) 
    26624 File
    26625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26626 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26627 arv() 
    26628 File
    26629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26630 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26631 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26632 File
    26633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26634 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26635 s.vertex_colors = self.vertex_colors(report_stats) 
    26636 File
    26637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26638 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26639 values, outside = self.volume_values() 
    26640 File
    26641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26642 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26643 return self.offset_values(v, n, tf) 
    26644 File
    26645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26646 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26647 values, outside = self.vertex_values(v, xf) 
    26648 File
    26649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26650 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26651 out_of_bounds_list = True) 
    26652 File
    26653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26654 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26655 subregion, step) 
    26656 File
    26657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26658 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26659 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26660 File
    26661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26662 packages/chimerax/map/volume.py", line 1243, in
    26663 matrix_indices_to_xyz_transform 
    26664 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26665 File
    26666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26667 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26668 r = self.subregion(step, subregion) 
    26669 File
    26670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26671 packages/chimerax/map/volume.py", line 1558, in subregion 
    26672 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26673 AttributeError: 'NoneType' object has no attribute 'size' 
    26674  
    26675 AttributeError: 'NoneType' object has no attribute 'size' 
    26676  
    26677 File
    26678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26679 packages/chimerax/map/volume.py", line 1558, in subregion 
    26680 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26681  
    26682 See log for complete Python traceback. 
    26683  
    26684 Traceback (most recent call last): 
    26685 File
    26686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26687 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26688 drew = self.draw_new_frame() 
    26689 File
    26690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26691 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26692 surface.update_clip_caps(view) 
    26693 File
    26694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26695 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26696 subdivision = settings.clipping_cap_subdivision) 
    26697 File
    26698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26699 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26700 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26701 File
    26702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26703 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26704 cm.set_geometry(varray, narray, tarray) 
    26705 File
    26706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26707 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26708 arv() 
    26709 File
    26710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26711 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26712 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26713 File
    26714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26715 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26716 s.vertex_colors = self.vertex_colors(report_stats) 
    26717 File
    26718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26719 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26720 values, outside = self.volume_values() 
    26721 File
    26722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26723 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26724 return self.offset_values(v, n, tf) 
    26725 File
    26726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26727 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26728 values, outside = self.vertex_values(v, xf) 
    26729 File
    26730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26731 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26732 out_of_bounds_list = True) 
    26733 File
    26734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26735 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26736 subregion, step) 
    26737 File
    26738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26739 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26740 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26741 File
    26742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26743 packages/chimerax/map/volume.py", line 1243, in
    26744 matrix_indices_to_xyz_transform 
    26745 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26746 File
    26747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26748 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26749 r = self.subregion(step, subregion) 
    26750 File
    26751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26752 packages/chimerax/map/volume.py", line 1558, in subregion 
    26753 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26754 AttributeError: 'NoneType' object has no attribute 'size' 
    26755  
    26756 AttributeError: 'NoneType' object has no attribute 'size' 
    26757  
    26758 File
    26759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26760 packages/chimerax/map/volume.py", line 1558, in subregion 
    26761 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26762  
    26763 See log for complete Python traceback. 
    26764  
    26765 Traceback (most recent call last): 
    26766 File
    26767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26768 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26769 drew = self.draw_new_frame() 
    26770 File
    26771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26772 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26773 surface.update_clip_caps(view) 
    26774 File
    26775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26776 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26777 subdivision = settings.clipping_cap_subdivision) 
    26778 File
    26779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26780 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26781 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26782 File
    26783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26784 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26785 cm.set_geometry(varray, narray, tarray) 
    26786 File
    26787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26788 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26789 arv() 
    26790 File
    26791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26792 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26793 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26794 File
    26795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26796 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26797 s.vertex_colors = self.vertex_colors(report_stats) 
    26798 File
    26799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26800 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26801 values, outside = self.volume_values() 
    26802 File
    26803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26804 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26805 return self.offset_values(v, n, tf) 
    26806 File
    26807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26808 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26809 values, outside = self.vertex_values(v, xf) 
    26810 File
    26811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26812 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26813 out_of_bounds_list = True) 
    26814 File
    26815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26816 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26817 subregion, step) 
    26818 File
    26819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26820 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26821 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26822 File
    26823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26824 packages/chimerax/map/volume.py", line 1243, in
    26825 matrix_indices_to_xyz_transform 
    26826 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26827 File
    26828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26829 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26830 r = self.subregion(step, subregion) 
    26831 File
    26832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26833 packages/chimerax/map/volume.py", line 1558, in subregion 
    26834 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26835 AttributeError: 'NoneType' object has no attribute 'size' 
    26836  
    26837 AttributeError: 'NoneType' object has no attribute 'size' 
    26838  
    26839 File
    26840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26841 packages/chimerax/map/volume.py", line 1558, in subregion 
    26842 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26843  
    26844 See log for complete Python traceback. 
    26845  
    26846 Traceback (most recent call last): 
    26847 File
    26848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26849 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26850 drew = self.draw_new_frame() 
    26851 File
    26852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26853 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26854 surface.update_clip_caps(view) 
    26855 File
    26856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26857 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26858 subdivision = settings.clipping_cap_subdivision) 
    26859 File
    26860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26861 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26862 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26863 File
    26864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26865 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26866 cm.set_geometry(varray, narray, tarray) 
    26867 File
    26868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26869 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26870 arv() 
    26871 File
    26872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26873 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26874 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26875 File
    26876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26877 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26878 s.vertex_colors = self.vertex_colors(report_stats) 
    26879 File
    26880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26881 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26882 values, outside = self.volume_values() 
    26883 File
    26884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26885 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26886 return self.offset_values(v, n, tf) 
    26887 File
    26888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26889 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26890 values, outside = self.vertex_values(v, xf) 
    26891 File
    26892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26893 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26894 out_of_bounds_list = True) 
    26895 File
    26896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26897 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26898 subregion, step) 
    26899 File
    26900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26901 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26902 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26903 File
    26904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26905 packages/chimerax/map/volume.py", line 1243, in
    26906 matrix_indices_to_xyz_transform 
    26907 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26908 File
    26909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26910 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26911 r = self.subregion(step, subregion) 
    26912 File
    26913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26914 packages/chimerax/map/volume.py", line 1558, in subregion 
    26915 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26916 AttributeError: 'NoneType' object has no attribute 'size' 
    26917  
    26918 AttributeError: 'NoneType' object has no attribute 'size' 
    26919  
    26920 File
    26921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26922 packages/chimerax/map/volume.py", line 1558, in subregion 
    26923 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26924  
    26925 See log for complete Python traceback. 
    26926  
    26927 Traceback (most recent call last): 
    26928 File
    26929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26930 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    26931 drew = self.draw_new_frame() 
    26932 File
    26933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26934 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    26935 surface.update_clip_caps(view) 
    26936 File
    26937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26938 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    26939 subdivision = settings.clipping_cap_subdivision) 
    26940 File
    26941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26942 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    26943 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    26944 File
    26945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26946 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    26947 cm.set_geometry(varray, narray, tarray) 
    26948 File
    26949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26950 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    26951 arv() 
    26952 File
    26953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26954 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    26955 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    26956 File
    26957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26958 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    26959 s.vertex_colors = self.vertex_colors(report_stats) 
    26960 File
    26961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26962 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    26963 values, outside = self.volume_values() 
    26964 File
    26965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26966 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    26967 return self.offset_values(v, n, tf) 
    26968 File
    26969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26970 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    26971 values, outside = self.vertex_values(v, xf) 
    26972 File
    26973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26974 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    26975 out_of_bounds_list = True) 
    26976 File
    26977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26978 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    26979 subregion, step) 
    26980 File
    26981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26982 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    26983 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    26984 File
    26985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26986 packages/chimerax/map/volume.py", line 1243, in
    26987 matrix_indices_to_xyz_transform 
    26988 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    26989 File
    26990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26991 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    26992 r = self.subregion(step, subregion) 
    26993 File
    26994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    26995 packages/chimerax/map/volume.py", line 1558, in subregion 
    26996 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    26997 AttributeError: 'NoneType' object has no attribute 'size' 
    26998  
    26999 AttributeError: 'NoneType' object has no attribute 'size' 
    27000  
    27001 File
    27002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27003 packages/chimerax/map/volume.py", line 1558, in subregion 
    27004 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27005  
    27006 See log for complete Python traceback. 
    27007  
    27008 Traceback (most recent call last): 
    27009 File
    27010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27011 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27012 drew = self.draw_new_frame() 
    27013 File
    27014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27015 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27016 surface.update_clip_caps(view) 
    27017 File
    27018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27019 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27020 subdivision = settings.clipping_cap_subdivision) 
    27021 File
    27022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27023 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27024 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27025 File
    27026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27027 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27028 cm.set_geometry(varray, narray, tarray) 
    27029 File
    27030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27031 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27032 arv() 
    27033 File
    27034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27035 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27036 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27037 File
    27038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27039 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27040 s.vertex_colors = self.vertex_colors(report_stats) 
    27041 File
    27042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27043 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27044 values, outside = self.volume_values() 
    27045 File
    27046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27047 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27048 return self.offset_values(v, n, tf) 
    27049 File
    27050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27051 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27052 values, outside = self.vertex_values(v, xf) 
    27053 File
    27054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27055 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27056 out_of_bounds_list = True) 
    27057 File
    27058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27059 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27060 subregion, step) 
    27061 File
    27062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27063 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27064 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27065 File
    27066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27067 packages/chimerax/map/volume.py", line 1243, in
    27068 matrix_indices_to_xyz_transform 
    27069 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27070 File
    27071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27072 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27073 r = self.subregion(step, subregion) 
    27074 File
    27075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27076 packages/chimerax/map/volume.py", line 1558, in subregion 
    27077 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27078 AttributeError: 'NoneType' object has no attribute 'size' 
    27079  
    27080 AttributeError: 'NoneType' object has no attribute 'size' 
    27081  
    27082 File
    27083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27084 packages/chimerax/map/volume.py", line 1558, in subregion 
    27085 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27086  
    27087 See log for complete Python traceback. 
    27088  
    27089 Traceback (most recent call last): 
    27090 File
    27091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27092 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27093 drew = self.draw_new_frame() 
    27094 File
    27095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27096 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27097 surface.update_clip_caps(view) 
    27098 File
    27099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27100 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27101 subdivision = settings.clipping_cap_subdivision) 
    27102 File
    27103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27104 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27105 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27106 File
    27107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27108 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27109 cm.set_geometry(varray, narray, tarray) 
    27110 File
    27111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27112 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27113 arv() 
    27114 File
    27115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27116 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27117 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27118 File
    27119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27120 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27121 s.vertex_colors = self.vertex_colors(report_stats) 
    27122 File
    27123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27124 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27125 values, outside = self.volume_values() 
    27126 File
    27127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27128 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27129 return self.offset_values(v, n, tf) 
    27130 File
    27131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27132 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27133 values, outside = self.vertex_values(v, xf) 
    27134 File
    27135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27136 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27137 out_of_bounds_list = True) 
    27138 File
    27139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27140 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27141 subregion, step) 
    27142 File
    27143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27144 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27145 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27146 File
    27147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27148 packages/chimerax/map/volume.py", line 1243, in
    27149 matrix_indices_to_xyz_transform 
    27150 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27151 File
    27152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27153 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27154 r = self.subregion(step, subregion) 
    27155 File
    27156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27157 packages/chimerax/map/volume.py", line 1558, in subregion 
    27158 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27159 AttributeError: 'NoneType' object has no attribute 'size' 
    27160  
    27161 AttributeError: 'NoneType' object has no attribute 'size' 
    27162  
    27163 File
    27164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27165 packages/chimerax/map/volume.py", line 1558, in subregion 
    27166 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27167  
    27168 See log for complete Python traceback. 
    27169  
    27170 Traceback (most recent call last): 
    27171 File
    27172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27173 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27174 drew = self.draw_new_frame() 
    27175 File
    27176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27177 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27178 surface.update_clip_caps(view) 
    27179 File
    27180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27181 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27182 subdivision = settings.clipping_cap_subdivision) 
    27183 File
    27184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27185 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27186 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27187 File
    27188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27189 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27190 cm.set_geometry(varray, narray, tarray) 
    27191 File
    27192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27193 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27194 arv() 
    27195 File
    27196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27197 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27198 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27199 File
    27200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27201 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27202 s.vertex_colors = self.vertex_colors(report_stats) 
    27203 File
    27204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27205 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27206 values, outside = self.volume_values() 
    27207 File
    27208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27209 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27210 return self.offset_values(v, n, tf) 
    27211 File
    27212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27213 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27214 values, outside = self.vertex_values(v, xf) 
    27215 File
    27216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27217 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27218 out_of_bounds_list = True) 
    27219 File
    27220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27221 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27222 subregion, step) 
    27223 File
    27224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27225 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27226 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27227 File
    27228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27229 packages/chimerax/map/volume.py", line 1243, in
    27230 matrix_indices_to_xyz_transform 
    27231 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27232 File
    27233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27234 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27235 r = self.subregion(step, subregion) 
    27236 File
    27237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27238 packages/chimerax/map/volume.py", line 1558, in subregion 
    27239 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27240 AttributeError: 'NoneType' object has no attribute 'size' 
    27241  
    27242 AttributeError: 'NoneType' object has no attribute 'size' 
    27243  
    27244 File
    27245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27246 packages/chimerax/map/volume.py", line 1558, in subregion 
    27247 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27248  
    27249 See log for complete Python traceback. 
    27250  
    27251 Traceback (most recent call last): 
    27252 File
    27253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27254 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27255 drew = self.draw_new_frame() 
    27256 File
    27257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27258 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27259 surface.update_clip_caps(view) 
    27260 File
    27261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27262 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27263 subdivision = settings.clipping_cap_subdivision) 
    27264 File
    27265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27266 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27267 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27268 File
    27269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27270 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27271 cm.set_geometry(varray, narray, tarray) 
    27272 File
    27273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27274 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27275 arv() 
    27276 File
    27277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27278 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27279 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27280 File
    27281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27282 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27283 s.vertex_colors = self.vertex_colors(report_stats) 
    27284 File
    27285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27286 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27287 values, outside = self.volume_values() 
    27288 File
    27289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27290 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27291 return self.offset_values(v, n, tf) 
    27292 File
    27293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27294 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27295 values, outside = self.vertex_values(v, xf) 
    27296 File
    27297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27298 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27299 out_of_bounds_list = True) 
    27300 File
    27301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27302 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27303 subregion, step) 
    27304 File
    27305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27306 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27307 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27308 File
    27309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27310 packages/chimerax/map/volume.py", line 1243, in
    27311 matrix_indices_to_xyz_transform 
    27312 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27313 File
    27314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27315 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27316 r = self.subregion(step, subregion) 
    27317 File
    27318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27319 packages/chimerax/map/volume.py", line 1558, in subregion 
    27320 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27321 AttributeError: 'NoneType' object has no attribute 'size' 
    27322  
    27323 AttributeError: 'NoneType' object has no attribute 'size' 
    27324  
    27325 File
    27326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27327 packages/chimerax/map/volume.py", line 1558, in subregion 
    27328 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27329  
    27330 See log for complete Python traceback. 
    27331  
    27332 Traceback (most recent call last): 
    27333 File
    27334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27335 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27336 drew = self.draw_new_frame() 
    27337 File
    27338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27339 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27340 surface.update_clip_caps(view) 
    27341 File
    27342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27343 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27344 subdivision = settings.clipping_cap_subdivision) 
    27345 File
    27346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27347 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27348 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27349 File
    27350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27351 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27352 cm.set_geometry(varray, narray, tarray) 
    27353 File
    27354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27355 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27356 arv() 
    27357 File
    27358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27359 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27360 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27361 File
    27362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27363 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27364 s.vertex_colors = self.vertex_colors(report_stats) 
    27365 File
    27366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27367 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27368 values, outside = self.volume_values() 
    27369 File
    27370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27371 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27372 return self.offset_values(v, n, tf) 
    27373 File
    27374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27375 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27376 values, outside = self.vertex_values(v, xf) 
    27377 File
    27378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27379 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27380 out_of_bounds_list = True) 
    27381 File
    27382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27383 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27384 subregion, step) 
    27385 File
    27386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27387 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27388 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27389 File
    27390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27391 packages/chimerax/map/volume.py", line 1243, in
    27392 matrix_indices_to_xyz_transform 
    27393 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27394 File
    27395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27396 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27397 r = self.subregion(step, subregion) 
    27398 File
    27399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27400 packages/chimerax/map/volume.py", line 1558, in subregion 
    27401 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27402 AttributeError: 'NoneType' object has no attribute 'size' 
    27403  
    27404 AttributeError: 'NoneType' object has no attribute 'size' 
    27405  
    27406 File
    27407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27408 packages/chimerax/map/volume.py", line 1558, in subregion 
    27409 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27410  
    27411 See log for complete Python traceback. 
    27412  
    27413 Traceback (most recent call last): 
    27414 File
    27415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27416 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27417 drew = self.draw_new_frame() 
    27418 File
    27419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27420 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27421 surface.update_clip_caps(view) 
    27422 File
    27423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27424 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27425 subdivision = settings.clipping_cap_subdivision) 
    27426 File
    27427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27428 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27429 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27430 File
    27431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27432 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27433 cm.set_geometry(varray, narray, tarray) 
    27434 File
    27435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27436 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27437 arv() 
    27438 File
    27439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27440 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27441 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27442 File
    27443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27444 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27445 s.vertex_colors = self.vertex_colors(report_stats) 
    27446 File
    27447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27448 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27449 values, outside = self.volume_values() 
    27450 File
    27451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27452 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27453 return self.offset_values(v, n, tf) 
    27454 File
    27455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27456 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27457 values, outside = self.vertex_values(v, xf) 
    27458 File
    27459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27460 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27461 out_of_bounds_list = True) 
    27462 File
    27463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27464 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27465 subregion, step) 
    27466 File
    27467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27468 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27469 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27470 File
    27471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27472 packages/chimerax/map/volume.py", line 1243, in
    27473 matrix_indices_to_xyz_transform 
    27474 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27475 File
    27476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27477 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27478 r = self.subregion(step, subregion) 
    27479 File
    27480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27481 packages/chimerax/map/volume.py", line 1558, in subregion 
    27482 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27483 AttributeError: 'NoneType' object has no attribute 'size' 
    27484  
    27485 AttributeError: 'NoneType' object has no attribute 'size' 
    27486  
    27487 File
    27488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27489 packages/chimerax/map/volume.py", line 1558, in subregion 
    27490 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27491  
    27492 See log for complete Python traceback. 
    27493  
    27494 Traceback (most recent call last): 
    27495 File
    27496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27497 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27498 drew = self.draw_new_frame() 
    27499 File
    27500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27501 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27502 surface.update_clip_caps(view) 
    27503 File
    27504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27505 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27506 subdivision = settings.clipping_cap_subdivision) 
    27507 File
    27508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27509 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27510 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27511 File
    27512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27513 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27514 cm.set_geometry(varray, narray, tarray) 
    27515 File
    27516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27517 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27518 arv() 
    27519 File
    27520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27521 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27522 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27523 File
    27524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27525 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27526 s.vertex_colors = self.vertex_colors(report_stats) 
    27527 File
    27528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27529 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27530 values, outside = self.volume_values() 
    27531 File
    27532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27533 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27534 return self.offset_values(v, n, tf) 
    27535 File
    27536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27537 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27538 values, outside = self.vertex_values(v, xf) 
    27539 File
    27540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27541 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27542 out_of_bounds_list = True) 
    27543 File
    27544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27545 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27546 subregion, step) 
    27547 File
    27548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27549 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27550 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27551 File
    27552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27553 packages/chimerax/map/volume.py", line 1243, in
    27554 matrix_indices_to_xyz_transform 
    27555 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27556 File
    27557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27558 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27559 r = self.subregion(step, subregion) 
    27560 File
    27561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27562 packages/chimerax/map/volume.py", line 1558, in subregion 
    27563 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27564 AttributeError: 'NoneType' object has no attribute 'size' 
    27565  
    27566 AttributeError: 'NoneType' object has no attribute 'size' 
    27567  
    27568 File
    27569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27570 packages/chimerax/map/volume.py", line 1558, in subregion 
    27571 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27572  
    27573 See log for complete Python traceback. 
    27574  
    27575 Traceback (most recent call last): 
    27576 File
    27577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27578 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27579 drew = self.draw_new_frame() 
    27580 File
    27581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27582 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27583 surface.update_clip_caps(view) 
    27584 File
    27585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27586 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27587 subdivision = settings.clipping_cap_subdivision) 
    27588 File
    27589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27590 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27591 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27592 File
    27593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27594 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27595 cm.set_geometry(varray, narray, tarray) 
    27596 File
    27597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27598 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27599 arv() 
    27600 File
    27601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27602 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27603 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27604 File
    27605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27606 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27607 s.vertex_colors = self.vertex_colors(report_stats) 
    27608 File
    27609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27610 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27611 values, outside = self.volume_values() 
    27612 File
    27613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27614 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27615 return self.offset_values(v, n, tf) 
    27616 File
    27617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27618 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27619 values, outside = self.vertex_values(v, xf) 
    27620 File
    27621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27622 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27623 out_of_bounds_list = True) 
    27624 File
    27625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27626 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27627 subregion, step) 
    27628 File
    27629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27630 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27631 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27632 File
    27633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27634 packages/chimerax/map/volume.py", line 1243, in
    27635 matrix_indices_to_xyz_transform 
    27636 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27637 File
    27638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27639 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27640 r = self.subregion(step, subregion) 
    27641 File
    27642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27643 packages/chimerax/map/volume.py", line 1558, in subregion 
    27644 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27645 AttributeError: 'NoneType' object has no attribute 'size' 
    27646  
    27647 AttributeError: 'NoneType' object has no attribute 'size' 
    27648  
    27649 File
    27650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27651 packages/chimerax/map/volume.py", line 1558, in subregion 
    27652 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27653  
    27654 See log for complete Python traceback. 
    27655  
    27656 Traceback (most recent call last): 
    27657 File
    27658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27659 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27660 drew = self.draw_new_frame() 
    27661 File
    27662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27663 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27664 surface.update_clip_caps(view) 
    27665 File
    27666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27667 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27668 subdivision = settings.clipping_cap_subdivision) 
    27669 File
    27670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27671 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27672 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27673 File
    27674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27675 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27676 cm.set_geometry(varray, narray, tarray) 
    27677 File
    27678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27679 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27680 arv() 
    27681 File
    27682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27683 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27684 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27685 File
    27686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27687 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27688 s.vertex_colors = self.vertex_colors(report_stats) 
    27689 File
    27690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27691 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27692 values, outside = self.volume_values() 
    27693 File
    27694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27695 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27696 return self.offset_values(v, n, tf) 
    27697 File
    27698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27699 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27700 values, outside = self.vertex_values(v, xf) 
    27701 File
    27702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27703 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27704 out_of_bounds_list = True) 
    27705 File
    27706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27707 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27708 subregion, step) 
    27709 File
    27710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27711 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27712 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27713 File
    27714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27715 packages/chimerax/map/volume.py", line 1243, in
    27716 matrix_indices_to_xyz_transform 
    27717 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27718 File
    27719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27720 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27721 r = self.subregion(step, subregion) 
    27722 File
    27723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27724 packages/chimerax/map/volume.py", line 1558, in subregion 
    27725 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27726 AttributeError: 'NoneType' object has no attribute 'size' 
    27727  
    27728 AttributeError: 'NoneType' object has no attribute 'size' 
    27729  
    27730 File
    27731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27732 packages/chimerax/map/volume.py", line 1558, in subregion 
    27733 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27734  
    27735 See log for complete Python traceback. 
    27736  
    27737 Traceback (most recent call last): 
    27738 File
    27739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27740 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27741 drew = self.draw_new_frame() 
    27742 File
    27743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27744 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27745 surface.update_clip_caps(view) 
    27746 File
    27747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27748 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27749 subdivision = settings.clipping_cap_subdivision) 
    27750 File
    27751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27752 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27753 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27754 File
    27755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27756 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27757 cm.set_geometry(varray, narray, tarray) 
    27758 File
    27759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27760 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27761 arv() 
    27762 File
    27763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27764 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27765 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27766 File
    27767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27768 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27769 s.vertex_colors = self.vertex_colors(report_stats) 
    27770 File
    27771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27772 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27773 values, outside = self.volume_values() 
    27774 File
    27775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27776 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27777 return self.offset_values(v, n, tf) 
    27778 File
    27779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27780 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27781 values, outside = self.vertex_values(v, xf) 
    27782 File
    27783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27784 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27785 out_of_bounds_list = True) 
    27786 File
    27787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27788 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27789 subregion, step) 
    27790 File
    27791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27792 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27793 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27794 File
    27795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27796 packages/chimerax/map/volume.py", line 1243, in
    27797 matrix_indices_to_xyz_transform 
    27798 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27799 File
    27800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27801 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27802 r = self.subregion(step, subregion) 
    27803 File
    27804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27805 packages/chimerax/map/volume.py", line 1558, in subregion 
    27806 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27807 AttributeError: 'NoneType' object has no attribute 'size' 
    27808  
    27809 AttributeError: 'NoneType' object has no attribute 'size' 
    27810  
    27811 File
    27812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27813 packages/chimerax/map/volume.py", line 1558, in subregion 
    27814 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27815  
    27816 See log for complete Python traceback. 
    27817  
    27818 Traceback (most recent call last): 
    27819 File
    27820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27821 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27822 drew = self.draw_new_frame() 
    27823 File
    27824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27825 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27826 surface.update_clip_caps(view) 
    27827 File
    27828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27829 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27830 subdivision = settings.clipping_cap_subdivision) 
    27831 File
    27832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27833 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27834 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27835 File
    27836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27837 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27838 cm.set_geometry(varray, narray, tarray) 
    27839 File
    27840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27841 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27842 arv() 
    27843 File
    27844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27845 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27846 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27847 File
    27848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27849 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27850 s.vertex_colors = self.vertex_colors(report_stats) 
    27851 File
    27852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27853 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27854 values, outside = self.volume_values() 
    27855 File
    27856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27857 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27858 return self.offset_values(v, n, tf) 
    27859 File
    27860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27861 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27862 values, outside = self.vertex_values(v, xf) 
    27863 File
    27864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27865 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27866 out_of_bounds_list = True) 
    27867 File
    27868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27869 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27870 subregion, step) 
    27871 File
    27872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27873 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27874 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27875 File
    27876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27877 packages/chimerax/map/volume.py", line 1243, in
    27878 matrix_indices_to_xyz_transform 
    27879 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27880 File
    27881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27882 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27883 r = self.subregion(step, subregion) 
    27884 File
    27885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27886 packages/chimerax/map/volume.py", line 1558, in subregion 
    27887 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27888 AttributeError: 'NoneType' object has no attribute 'size' 
    27889  
    27890 AttributeError: 'NoneType' object has no attribute 'size' 
    27891  
    27892 File
    27893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27894 packages/chimerax/map/volume.py", line 1558, in subregion 
    27895 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27896  
    27897 See log for complete Python traceback. 
    27898  
    27899 Traceback (most recent call last): 
    27900 File
    27901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27902 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27903 drew = self.draw_new_frame() 
    27904 File
    27905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27906 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27907 surface.update_clip_caps(view) 
    27908 File
    27909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27910 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27911 subdivision = settings.clipping_cap_subdivision) 
    27912 File
    27913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27914 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27915 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27916 File
    27917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27918 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    27919 cm.set_geometry(varray, narray, tarray) 
    27920 File
    27921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27922 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    27923 arv() 
    27924 File
    27925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27926 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    27927 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    27928 File
    27929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27930 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    27931 s.vertex_colors = self.vertex_colors(report_stats) 
    27932 File
    27933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27934 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    27935 values, outside = self.volume_values() 
    27936 File
    27937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27938 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    27939 return self.offset_values(v, n, tf) 
    27940 File
    27941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27942 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    27943 values, outside = self.vertex_values(v, xf) 
    27944 File
    27945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27946 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    27947 out_of_bounds_list = True) 
    27948 File
    27949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27950 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    27951 subregion, step) 
    27952 File
    27953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27954 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    27955 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    27956 File
    27957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27958 packages/chimerax/map/volume.py", line 1243, in
    27959 matrix_indices_to_xyz_transform 
    27960 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    27961 File
    27962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27963 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    27964 r = self.subregion(step, subregion) 
    27965 File
    27966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27967 packages/chimerax/map/volume.py", line 1558, in subregion 
    27968 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27969 AttributeError: 'NoneType' object has no attribute 'size' 
    27970  
    27971 AttributeError: 'NoneType' object has no attribute 'size' 
    27972  
    27973 File
    27974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27975 packages/chimerax/map/volume.py", line 1558, in subregion 
    27976 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    27977  
    27978 See log for complete Python traceback. 
    27979  
    27980 Traceback (most recent call last): 
    27981 File
    27982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27983 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    27984 drew = self.draw_new_frame() 
    27985 File
    27986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27987 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    27988 surface.update_clip_caps(view) 
    27989 File
    27990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27991 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    27992 subdivision = settings.clipping_cap_subdivision) 
    27993 File
    27994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27995 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    27996 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    27997 File
    27998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    27999 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28000 cm.set_geometry(varray, narray, tarray) 
    28001 File
    28002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28003 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28004 arv() 
    28005 File
    28006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28007 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28008 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28009 File
    28010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28011 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28012 s.vertex_colors = self.vertex_colors(report_stats) 
    28013 File
    28014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28015 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28016 values, outside = self.volume_values() 
    28017 File
    28018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28019 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28020 return self.offset_values(v, n, tf) 
    28021 File
    28022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28023 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28024 values, outside = self.vertex_values(v, xf) 
    28025 File
    28026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28027 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28028 out_of_bounds_list = True) 
    28029 File
    28030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28031 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28032 subregion, step) 
    28033 File
    28034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28035 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28036 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28037 File
    28038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28039 packages/chimerax/map/volume.py", line 1243, in
    28040 matrix_indices_to_xyz_transform 
    28041 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28042 File
    28043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28044 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28045 r = self.subregion(step, subregion) 
    28046 File
    28047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28048 packages/chimerax/map/volume.py", line 1558, in subregion 
    28049 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28050 AttributeError: 'NoneType' object has no attribute 'size' 
    28051  
    28052 AttributeError: 'NoneType' object has no attribute 'size' 
    28053  
    28054 File
    28055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28056 packages/chimerax/map/volume.py", line 1558, in subregion 
    28057 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28058  
    28059 See log for complete Python traceback. 
    28060  
    28061 Traceback (most recent call last): 
    28062 File
    28063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28064 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28065 drew = self.draw_new_frame() 
    28066 File
    28067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28068 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28069 surface.update_clip_caps(view) 
    28070 File
    28071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28072 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28073 subdivision = settings.clipping_cap_subdivision) 
    28074 File
    28075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28076 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28077 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28078 File
    28079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28080 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28081 cm.set_geometry(varray, narray, tarray) 
    28082 File
    28083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28084 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28085 arv() 
    28086 File
    28087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28088 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28089 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28090 File
    28091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28092 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28093 s.vertex_colors = self.vertex_colors(report_stats) 
    28094 File
    28095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28096 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28097 values, outside = self.volume_values() 
    28098 File
    28099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28100 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28101 return self.offset_values(v, n, tf) 
    28102 File
    28103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28104 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28105 values, outside = self.vertex_values(v, xf) 
    28106 File
    28107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28108 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28109 out_of_bounds_list = True) 
    28110 File
    28111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28112 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28113 subregion, step) 
    28114 File
    28115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28116 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28117 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28118 File
    28119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28120 packages/chimerax/map/volume.py", line 1243, in
    28121 matrix_indices_to_xyz_transform 
    28122 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28123 File
    28124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28125 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28126 r = self.subregion(step, subregion) 
    28127 File
    28128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28129 packages/chimerax/map/volume.py", line 1558, in subregion 
    28130 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28131 AttributeError: 'NoneType' object has no attribute 'size' 
    28132  
    28133 AttributeError: 'NoneType' object has no attribute 'size' 
    28134  
    28135 File
    28136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28137 packages/chimerax/map/volume.py", line 1558, in subregion 
    28138 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28139  
    28140 See log for complete Python traceback. 
    28141  
    28142 Traceback (most recent call last): 
    28143 File
    28144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28145 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28146 drew = self.draw_new_frame() 
    28147 File
    28148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28149 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28150 surface.update_clip_caps(view) 
    28151 File
    28152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28153 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28154 subdivision = settings.clipping_cap_subdivision) 
    28155 File
    28156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28157 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28158 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28159 File
    28160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28161 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28162 cm.set_geometry(varray, narray, tarray) 
    28163 File
    28164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28165 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28166 arv() 
    28167 File
    28168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28169 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28170 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28171 File
    28172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28173 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28174 s.vertex_colors = self.vertex_colors(report_stats) 
    28175 File
    28176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28177 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28178 values, outside = self.volume_values() 
    28179 File
    28180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28181 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28182 return self.offset_values(v, n, tf) 
    28183 File
    28184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28185 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28186 values, outside = self.vertex_values(v, xf) 
    28187 File
    28188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28189 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28190 out_of_bounds_list = True) 
    28191 File
    28192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28193 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28194 subregion, step) 
    28195 File
    28196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28197 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28198 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28199 File
    28200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28201 packages/chimerax/map/volume.py", line 1243, in
    28202 matrix_indices_to_xyz_transform 
    28203 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28204 File
    28205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28206 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28207 r = self.subregion(step, subregion) 
    28208 File
    28209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28210 packages/chimerax/map/volume.py", line 1558, in subregion 
    28211 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28212 AttributeError: 'NoneType' object has no attribute 'size' 
    28213  
    28214 AttributeError: 'NoneType' object has no attribute 'size' 
    28215  
    28216 File
    28217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28218 packages/chimerax/map/volume.py", line 1558, in subregion 
    28219 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28220  
    28221 See log for complete Python traceback. 
    28222  
    28223 Traceback (most recent call last): 
    28224 File
    28225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28226 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28227 drew = self.draw_new_frame() 
    28228 File
    28229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28230 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28231 surface.update_clip_caps(view) 
    28232 File
    28233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28234 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28235 subdivision = settings.clipping_cap_subdivision) 
    28236 File
    28237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28238 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28239 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28240 File
    28241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28242 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28243 cm.set_geometry(varray, narray, tarray) 
    28244 File
    28245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28246 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28247 arv() 
    28248 File
    28249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28250 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28251 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28252 File
    28253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28254 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28255 s.vertex_colors = self.vertex_colors(report_stats) 
    28256 File
    28257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28258 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28259 values, outside = self.volume_values() 
    28260 File
    28261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28262 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28263 return self.offset_values(v, n, tf) 
    28264 File
    28265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28266 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28267 values, outside = self.vertex_values(v, xf) 
    28268 File
    28269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28270 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28271 out_of_bounds_list = True) 
    28272 File
    28273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28274 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28275 subregion, step) 
    28276 File
    28277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28278 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28279 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28280 File
    28281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28282 packages/chimerax/map/volume.py", line 1243, in
    28283 matrix_indices_to_xyz_transform 
    28284 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28285 File
    28286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28287 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28288 r = self.subregion(step, subregion) 
    28289 File
    28290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28291 packages/chimerax/map/volume.py", line 1558, in subregion 
    28292 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28293 AttributeError: 'NoneType' object has no attribute 'size' 
    28294  
    28295 AttributeError: 'NoneType' object has no attribute 'size' 
    28296  
    28297 File
    28298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28299 packages/chimerax/map/volume.py", line 1558, in subregion 
    28300 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28301  
    28302 See log for complete Python traceback. 
    28303  
    28304 Traceback (most recent call last): 
    28305 File
    28306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28307 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28308 drew = self.draw_new_frame() 
    28309 File
    28310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28311 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28312 surface.update_clip_caps(view) 
    28313 File
    28314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28315 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28316 subdivision = settings.clipping_cap_subdivision) 
    28317 File
    28318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28319 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28320 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28321 File
    28322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28323 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28324 cm.set_geometry(varray, narray, tarray) 
    28325 File
    28326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28327 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28328 arv() 
    28329 File
    28330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28331 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28332 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28333 File
    28334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28335 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28336 s.vertex_colors = self.vertex_colors(report_stats) 
    28337 File
    28338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28339 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28340 values, outside = self.volume_values() 
    28341 File
    28342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28343 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28344 return self.offset_values(v, n, tf) 
    28345 File
    28346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28347 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28348 values, outside = self.vertex_values(v, xf) 
    28349 File
    28350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28351 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28352 out_of_bounds_list = True) 
    28353 File
    28354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28355 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28356 subregion, step) 
    28357 File
    28358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28359 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28360 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28361 File
    28362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28363 packages/chimerax/map/volume.py", line 1243, in
    28364 matrix_indices_to_xyz_transform 
    28365 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28366 File
    28367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28368 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28369 r = self.subregion(step, subregion) 
    28370 File
    28371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28372 packages/chimerax/map/volume.py", line 1558, in subregion 
    28373 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28374 AttributeError: 'NoneType' object has no attribute 'size' 
    28375  
    28376 AttributeError: 'NoneType' object has no attribute 'size' 
    28377  
    28378 File
    28379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28380 packages/chimerax/map/volume.py", line 1558, in subregion 
    28381 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28382  
    28383 See log for complete Python traceback. 
    28384  
    28385 Traceback (most recent call last): 
    28386 File
    28387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28388 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28389 drew = self.draw_new_frame() 
    28390 File
    28391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28392 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28393 surface.update_clip_caps(view) 
    28394 File
    28395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28396 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28397 subdivision = settings.clipping_cap_subdivision) 
    28398 File
    28399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28400 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28401 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28402 File
    28403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28404 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28405 cm.set_geometry(varray, narray, tarray) 
    28406 File
    28407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28408 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28409 arv() 
    28410 File
    28411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28412 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28413 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28414 File
    28415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28416 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28417 s.vertex_colors = self.vertex_colors(report_stats) 
    28418 File
    28419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28420 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28421 values, outside = self.volume_values() 
    28422 File
    28423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28424 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28425 return self.offset_values(v, n, tf) 
    28426 File
    28427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28428 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28429 values, outside = self.vertex_values(v, xf) 
    28430 File
    28431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28432 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28433 out_of_bounds_list = True) 
    28434 File
    28435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28436 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28437 subregion, step) 
    28438 File
    28439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28440 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28441 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28442 File
    28443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28444 packages/chimerax/map/volume.py", line 1243, in
    28445 matrix_indices_to_xyz_transform 
    28446 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28447 File
    28448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28449 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28450 r = self.subregion(step, subregion) 
    28451 File
    28452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28453 packages/chimerax/map/volume.py", line 1558, in subregion 
    28454 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28455 AttributeError: 'NoneType' object has no attribute 'size' 
    28456  
    28457 AttributeError: 'NoneType' object has no attribute 'size' 
    28458  
    28459 File
    28460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28461 packages/chimerax/map/volume.py", line 1558, in subregion 
    28462 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28463  
    28464 See log for complete Python traceback. 
    28465  
    28466 Traceback (most recent call last): 
    28467 File
    28468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28469 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28470 drew = self.draw_new_frame() 
    28471 File
    28472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28473 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28474 surface.update_clip_caps(view) 
    28475 File
    28476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28477 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28478 subdivision = settings.clipping_cap_subdivision) 
    28479 File
    28480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28481 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28482 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28483 File
    28484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28485 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28486 cm.set_geometry(varray, narray, tarray) 
    28487 File
    28488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28489 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28490 arv() 
    28491 File
    28492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28493 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28494 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28495 File
    28496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28497 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28498 s.vertex_colors = self.vertex_colors(report_stats) 
    28499 File
    28500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28501 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28502 values, outside = self.volume_values() 
    28503 File
    28504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28505 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28506 return self.offset_values(v, n, tf) 
    28507 File
    28508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28509 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28510 values, outside = self.vertex_values(v, xf) 
    28511 File
    28512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28513 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28514 out_of_bounds_list = True) 
    28515 File
    28516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28517 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28518 subregion, step) 
    28519 File
    28520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28521 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28522 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28523 File
    28524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28525 packages/chimerax/map/volume.py", line 1243, in
    28526 matrix_indices_to_xyz_transform 
    28527 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28528 File
    28529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28530 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28531 r = self.subregion(step, subregion) 
    28532 File
    28533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28534 packages/chimerax/map/volume.py", line 1558, in subregion 
    28535 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28536 AttributeError: 'NoneType' object has no attribute 'size' 
    28537  
    28538 AttributeError: 'NoneType' object has no attribute 'size' 
    28539  
    28540 File
    28541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28542 packages/chimerax/map/volume.py", line 1558, in subregion 
    28543 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28544  
    28545 See log for complete Python traceback. 
    28546  
    28547 Traceback (most recent call last): 
    28548 File
    28549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28550 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28551 drew = self.draw_new_frame() 
    28552 File
    28553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28554 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28555 surface.update_clip_caps(view) 
    28556 File
    28557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28558 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28559 subdivision = settings.clipping_cap_subdivision) 
    28560 File
    28561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28562 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28563 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28564 File
    28565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28566 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28567 cm.set_geometry(varray, narray, tarray) 
    28568 File
    28569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28570 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28571 arv() 
    28572 File
    28573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28574 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28575 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28576 File
    28577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28578 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28579 s.vertex_colors = self.vertex_colors(report_stats) 
    28580 File
    28581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28582 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28583 values, outside = self.volume_values() 
    28584 File
    28585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28586 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28587 return self.offset_values(v, n, tf) 
    28588 File
    28589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28590 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28591 values, outside = self.vertex_values(v, xf) 
    28592 File
    28593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28594 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28595 out_of_bounds_list = True) 
    28596 File
    28597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28598 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28599 subregion, step) 
    28600 File
    28601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28602 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28603 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28604 File
    28605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28606 packages/chimerax/map/volume.py", line 1243, in
    28607 matrix_indices_to_xyz_transform 
    28608 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28609 File
    28610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28611 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28612 r = self.subregion(step, subregion) 
    28613 File
    28614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28615 packages/chimerax/map/volume.py", line 1558, in subregion 
    28616 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28617 AttributeError: 'NoneType' object has no attribute 'size' 
    28618  
    28619 AttributeError: 'NoneType' object has no attribute 'size' 
    28620  
    28621 File
    28622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28623 packages/chimerax/map/volume.py", line 1558, in subregion 
    28624 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28625  
    28626 See log for complete Python traceback. 
    28627  
    28628 Traceback (most recent call last): 
    28629 File
    28630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28631 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28632 drew = self.draw_new_frame() 
    28633 File
    28634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28635 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28636 surface.update_clip_caps(view) 
    28637 File
    28638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28639 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28640 subdivision = settings.clipping_cap_subdivision) 
    28641 File
    28642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28643 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28644 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28645 File
    28646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28647 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28648 cm.set_geometry(varray, narray, tarray) 
    28649 File
    28650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28651 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28652 arv() 
    28653 File
    28654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28655 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28656 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28657 File
    28658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28659 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28660 s.vertex_colors = self.vertex_colors(report_stats) 
    28661 File
    28662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28663 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28664 values, outside = self.volume_values() 
    28665 File
    28666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28667 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28668 return self.offset_values(v, n, tf) 
    28669 File
    28670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28671 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28672 values, outside = self.vertex_values(v, xf) 
    28673 File
    28674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28675 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28676 out_of_bounds_list = True) 
    28677 File
    28678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28679 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28680 subregion, step) 
    28681 File
    28682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28683 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28684 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28685 File
    28686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28687 packages/chimerax/map/volume.py", line 1243, in
    28688 matrix_indices_to_xyz_transform 
    28689 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28690 File
    28691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28692 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28693 r = self.subregion(step, subregion) 
    28694 File
    28695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28696 packages/chimerax/map/volume.py", line 1558, in subregion 
    28697 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28698 AttributeError: 'NoneType' object has no attribute 'size' 
    28699  
    28700 AttributeError: 'NoneType' object has no attribute 'size' 
    28701  
    28702 File
    28703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28704 packages/chimerax/map/volume.py", line 1558, in subregion 
    28705 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28706  
    28707 See log for complete Python traceback. 
    28708  
    28709 Traceback (most recent call last): 
    28710 File
    28711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28712 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28713 drew = self.draw_new_frame() 
    28714 File
    28715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28716 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28717 surface.update_clip_caps(view) 
    28718 File
    28719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28720 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28721 subdivision = settings.clipping_cap_subdivision) 
    28722 File
    28723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28724 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28725 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28726 File
    28727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28728 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28729 cm.set_geometry(varray, narray, tarray) 
    28730 File
    28731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28732 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28733 arv() 
    28734 File
    28735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28736 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28737 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28738 File
    28739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28740 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28741 s.vertex_colors = self.vertex_colors(report_stats) 
    28742 File
    28743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28744 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28745 values, outside = self.volume_values() 
    28746 File
    28747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28748 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28749 return self.offset_values(v, n, tf) 
    28750 File
    28751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28752 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28753 values, outside = self.vertex_values(v, xf) 
    28754 File
    28755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28756 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28757 out_of_bounds_list = True) 
    28758 File
    28759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28760 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28761 subregion, step) 
    28762 File
    28763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28764 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28765 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28766 File
    28767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28768 packages/chimerax/map/volume.py", line 1243, in
    28769 matrix_indices_to_xyz_transform 
    28770 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28771 File
    28772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28773 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28774 r = self.subregion(step, subregion) 
    28775 File
    28776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28777 packages/chimerax/map/volume.py", line 1558, in subregion 
    28778 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28779 AttributeError: 'NoneType' object has no attribute 'size' 
    28780  
    28781 AttributeError: 'NoneType' object has no attribute 'size' 
    28782  
    28783 File
    28784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28785 packages/chimerax/map/volume.py", line 1558, in subregion 
    28786 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28787  
    28788 See log for complete Python traceback. 
    28789  
    28790 Traceback (most recent call last): 
    28791 File
    28792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28793 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28794 drew = self.draw_new_frame() 
    28795 File
    28796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28797 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28798 surface.update_clip_caps(view) 
    28799 File
    28800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28801 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28802 subdivision = settings.clipping_cap_subdivision) 
    28803 File
    28804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28805 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28806 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28807 File
    28808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28809 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28810 cm.set_geometry(varray, narray, tarray) 
    28811 File
    28812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28813 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28814 arv() 
    28815 File
    28816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28817 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28818 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28819 File
    28820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28821 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28822 s.vertex_colors = self.vertex_colors(report_stats) 
    28823 File
    28824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28825 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28826 values, outside = self.volume_values() 
    28827 File
    28828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28829 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28830 return self.offset_values(v, n, tf) 
    28831 File
    28832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28833 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28834 values, outside = self.vertex_values(v, xf) 
    28835 File
    28836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28837 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28838 out_of_bounds_list = True) 
    28839 File
    28840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28841 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28842 subregion, step) 
    28843 File
    28844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28845 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28846 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28847 File
    28848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28849 packages/chimerax/map/volume.py", line 1243, in
    28850 matrix_indices_to_xyz_transform 
    28851 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28852 File
    28853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28854 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28855 r = self.subregion(step, subregion) 
    28856 File
    28857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28858 packages/chimerax/map/volume.py", line 1558, in subregion 
    28859 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28860 AttributeError: 'NoneType' object has no attribute 'size' 
    28861  
    28862 AttributeError: 'NoneType' object has no attribute 'size' 
    28863  
    28864 File
    28865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28866 packages/chimerax/map/volume.py", line 1558, in subregion 
    28867 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28868  
    28869 See log for complete Python traceback. 
    28870  
    28871 Traceback (most recent call last): 
    28872 File
    28873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28874 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28875 drew = self.draw_new_frame() 
    28876 File
    28877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28878 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28879 surface.update_clip_caps(view) 
    28880 File
    28881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28882 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28883 subdivision = settings.clipping_cap_subdivision) 
    28884 File
    28885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28886 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28887 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28888 File
    28889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28890 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28891 cm.set_geometry(varray, narray, tarray) 
    28892 File
    28893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28894 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28895 arv() 
    28896 File
    28897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28898 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28899 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28900 File
    28901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28902 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28903 s.vertex_colors = self.vertex_colors(report_stats) 
    28904 File
    28905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28906 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28907 values, outside = self.volume_values() 
    28908 File
    28909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28910 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28911 return self.offset_values(v, n, tf) 
    28912 File
    28913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28914 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28915 values, outside = self.vertex_values(v, xf) 
    28916 File
    28917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28918 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    28919 out_of_bounds_list = True) 
    28920 File
    28921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28922 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    28923 subregion, step) 
    28924 File
    28925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28926 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    28927 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    28928 File
    28929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28930 packages/chimerax/map/volume.py", line 1243, in
    28931 matrix_indices_to_xyz_transform 
    28932 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    28933 File
    28934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28935 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    28936 r = self.subregion(step, subregion) 
    28937 File
    28938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28939 packages/chimerax/map/volume.py", line 1558, in subregion 
    28940 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28941 AttributeError: 'NoneType' object has no attribute 'size' 
    28942  
    28943 AttributeError: 'NoneType' object has no attribute 'size' 
    28944  
    28945 File
    28946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28947 packages/chimerax/map/volume.py", line 1558, in subregion 
    28948 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    28949  
    28950 See log for complete Python traceback. 
    28951  
    28952 Traceback (most recent call last): 
    28953 File
    28954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28955 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    28956 drew = self.draw_new_frame() 
    28957 File
    28958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28959 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    28960 surface.update_clip_caps(view) 
    28961 File
    28962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28963 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    28964 subdivision = settings.clipping_cap_subdivision) 
    28965 File
    28966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28967 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    28968 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    28969 File
    28970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28971 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    28972 cm.set_geometry(varray, narray, tarray) 
    28973 File
    28974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28975 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    28976 arv() 
    28977 File
    28978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28979 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    28980 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    28981 File
    28982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28983 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    28984 s.vertex_colors = self.vertex_colors(report_stats) 
    28985 File
    28986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28987 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    28988 values, outside = self.volume_values() 
    28989 File
    28990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28991 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    28992 return self.offset_values(v, n, tf) 
    28993 File
    28994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28995 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    28996 values, outside = self.vertex_values(v, xf) 
    28997 File
    28998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    28999 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29000 out_of_bounds_list = True) 
    29001 File
    29002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29003 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29004 subregion, step) 
    29005 File
    29006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29007 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29008 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29009 File
    29010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29011 packages/chimerax/map/volume.py", line 1243, in
    29012 matrix_indices_to_xyz_transform 
    29013 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29014 File
    29015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29016 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29017 r = self.subregion(step, subregion) 
    29018 File
    29019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29020 packages/chimerax/map/volume.py", line 1558, in subregion 
    29021 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29022 AttributeError: 'NoneType' object has no attribute 'size' 
    29023  
    29024 AttributeError: 'NoneType' object has no attribute 'size' 
    29025  
    29026 File
    29027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29028 packages/chimerax/map/volume.py", line 1558, in subregion 
    29029 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29030  
    29031 See log for complete Python traceback. 
    29032  
    29033 Traceback (most recent call last): 
    29034 File
    29035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29036 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29037 drew = self.draw_new_frame() 
    29038 File
    29039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29040 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29041 surface.update_clip_caps(view) 
    29042 File
    29043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29044 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29045 subdivision = settings.clipping_cap_subdivision) 
    29046 File
    29047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29048 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29049 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29050 File
    29051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29052 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29053 cm.set_geometry(varray, narray, tarray) 
    29054 File
    29055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29056 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29057 arv() 
    29058 File
    29059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29060 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29061 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29062 File
    29063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29064 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29065 s.vertex_colors = self.vertex_colors(report_stats) 
    29066 File
    29067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29068 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29069 values, outside = self.volume_values() 
    29070 File
    29071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29072 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29073 return self.offset_values(v, n, tf) 
    29074 File
    29075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29076 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29077 values, outside = self.vertex_values(v, xf) 
    29078 File
    29079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29080 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29081 out_of_bounds_list = True) 
    29082 File
    29083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29084 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29085 subregion, step) 
    29086 File
    29087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29088 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29089 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29090 File
    29091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29092 packages/chimerax/map/volume.py", line 1243, in
    29093 matrix_indices_to_xyz_transform 
    29094 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29095 File
    29096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29097 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29098 r = self.subregion(step, subregion) 
    29099 File
    29100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29101 packages/chimerax/map/volume.py", line 1558, in subregion 
    29102 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29103 AttributeError: 'NoneType' object has no attribute 'size' 
    29104  
    29105 AttributeError: 'NoneType' object has no attribute 'size' 
    29106  
    29107 File
    29108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29109 packages/chimerax/map/volume.py", line 1558, in subregion 
    29110 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29111  
    29112 See log for complete Python traceback. 
    29113  
    29114 Traceback (most recent call last): 
    29115 File
    29116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29117 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29118 drew = self.draw_new_frame() 
    29119 File
    29120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29121 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29122 surface.update_clip_caps(view) 
    29123 File
    29124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29125 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29126 subdivision = settings.clipping_cap_subdivision) 
    29127 File
    29128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29129 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29130 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29131 File
    29132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29133 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29134 cm.set_geometry(varray, narray, tarray) 
    29135 File
    29136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29137 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29138 arv() 
    29139 File
    29140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29141 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29142 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29143 File
    29144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29145 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29146 s.vertex_colors = self.vertex_colors(report_stats) 
    29147 File
    29148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29149 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29150 values, outside = self.volume_values() 
    29151 File
    29152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29153 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29154 return self.offset_values(v, n, tf) 
    29155 File
    29156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29157 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29158 values, outside = self.vertex_values(v, xf) 
    29159 File
    29160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29161 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29162 out_of_bounds_list = True) 
    29163 File
    29164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29165 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29166 subregion, step) 
    29167 File
    29168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29169 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29170 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29171 File
    29172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29173 packages/chimerax/map/volume.py", line 1243, in
    29174 matrix_indices_to_xyz_transform 
    29175 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29176 File
    29177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29178 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29179 r = self.subregion(step, subregion) 
    29180 File
    29181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29182 packages/chimerax/map/volume.py", line 1558, in subregion 
    29183 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29184 AttributeError: 'NoneType' object has no attribute 'size' 
    29185  
    29186 AttributeError: 'NoneType' object has no attribute 'size' 
    29187  
    29188 File
    29189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29190 packages/chimerax/map/volume.py", line 1558, in subregion 
    29191 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29192  
    29193 See log for complete Python traceback. 
    29194  
    29195 Traceback (most recent call last): 
    29196 File
    29197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29198 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29199 drew = self.draw_new_frame() 
    29200 File
    29201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29202 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29203 surface.update_clip_caps(view) 
    29204 File
    29205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29206 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29207 subdivision = settings.clipping_cap_subdivision) 
    29208 File
    29209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29210 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29211 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29212 File
    29213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29214 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29215 cm.set_geometry(varray, narray, tarray) 
    29216 File
    29217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29218 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29219 arv() 
    29220 File
    29221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29222 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29223 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29224 File
    29225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29226 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29227 s.vertex_colors = self.vertex_colors(report_stats) 
    29228 File
    29229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29230 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29231 values, outside = self.volume_values() 
    29232 File
    29233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29234 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29235 return self.offset_values(v, n, tf) 
    29236 File
    29237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29238 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29239 values, outside = self.vertex_values(v, xf) 
    29240 File
    29241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29242 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29243 out_of_bounds_list = True) 
    29244 File
    29245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29246 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29247 subregion, step) 
    29248 File
    29249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29250 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29251 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29252 File
    29253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29254 packages/chimerax/map/volume.py", line 1243, in
    29255 matrix_indices_to_xyz_transform 
    29256 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29257 File
    29258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29259 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29260 r = self.subregion(step, subregion) 
    29261 File
    29262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29263 packages/chimerax/map/volume.py", line 1558, in subregion 
    29264 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29265 AttributeError: 'NoneType' object has no attribute 'size' 
    29266  
    29267 AttributeError: 'NoneType' object has no attribute 'size' 
    29268  
    29269 File
    29270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29271 packages/chimerax/map/volume.py", line 1558, in subregion 
    29272 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29273  
    29274 See log for complete Python traceback. 
    29275  
    29276 Traceback (most recent call last): 
    29277 File
    29278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29279 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29280 drew = self.draw_new_frame() 
    29281 File
    29282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29283 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29284 surface.update_clip_caps(view) 
    29285 File
    29286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29287 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29288 subdivision = settings.clipping_cap_subdivision) 
    29289 File
    29290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29291 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29292 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29293 File
    29294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29295 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29296 cm.set_geometry(varray, narray, tarray) 
    29297 File
    29298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29299 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29300 arv() 
    29301 File
    29302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29303 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29304 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29305 File
    29306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29307 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29308 s.vertex_colors = self.vertex_colors(report_stats) 
    29309 File
    29310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29311 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29312 values, outside = self.volume_values() 
    29313 File
    29314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29315 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29316 return self.offset_values(v, n, tf) 
    29317 File
    29318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29319 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29320 values, outside = self.vertex_values(v, xf) 
    29321 File
    29322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29323 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29324 out_of_bounds_list = True) 
    29325 File
    29326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29327 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29328 subregion, step) 
    29329 File
    29330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29331 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29332 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29333 File
    29334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29335 packages/chimerax/map/volume.py", line 1243, in
    29336 matrix_indices_to_xyz_transform 
    29337 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29338 File
    29339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29340 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29341 r = self.subregion(step, subregion) 
    29342 File
    29343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29344 packages/chimerax/map/volume.py", line 1558, in subregion 
    29345 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29346 AttributeError: 'NoneType' object has no attribute 'size' 
    29347  
    29348 AttributeError: 'NoneType' object has no attribute 'size' 
    29349  
    29350 File
    29351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29352 packages/chimerax/map/volume.py", line 1558, in subregion 
    29353 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29354  
    29355 See log for complete Python traceback. 
    29356  
    29357 Traceback (most recent call last): 
    29358 File
    29359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29360 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29361 drew = self.draw_new_frame() 
    29362 File
    29363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29364 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29365 surface.update_clip_caps(view) 
    29366 File
    29367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29368 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29369 subdivision = settings.clipping_cap_subdivision) 
    29370 File
    29371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29372 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29373 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29374 File
    29375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29376 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29377 cm.set_geometry(varray, narray, tarray) 
    29378 File
    29379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29380 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29381 arv() 
    29382 File
    29383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29384 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29385 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29386 File
    29387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29388 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29389 s.vertex_colors = self.vertex_colors(report_stats) 
    29390 File
    29391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29392 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29393 values, outside = self.volume_values() 
    29394 File
    29395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29396 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29397 return self.offset_values(v, n, tf) 
    29398 File
    29399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29400 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29401 values, outside = self.vertex_values(v, xf) 
    29402 File
    29403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29404 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29405 out_of_bounds_list = True) 
    29406 File
    29407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29408 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29409 subregion, step) 
    29410 File
    29411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29412 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29413 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29414 File
    29415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29416 packages/chimerax/map/volume.py", line 1243, in
    29417 matrix_indices_to_xyz_transform 
    29418 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29419 File
    29420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29421 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29422 r = self.subregion(step, subregion) 
    29423 File
    29424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29425 packages/chimerax/map/volume.py", line 1558, in subregion 
    29426 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29427 AttributeError: 'NoneType' object has no attribute 'size' 
    29428  
    29429 AttributeError: 'NoneType' object has no attribute 'size' 
    29430  
    29431 File
    29432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29433 packages/chimerax/map/volume.py", line 1558, in subregion 
    29434 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29435  
    29436 See log for complete Python traceback. 
    29437  
    29438 Traceback (most recent call last): 
    29439 File
    29440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29441 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29442 drew = self.draw_new_frame() 
    29443 File
    29444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29445 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29446 surface.update_clip_caps(view) 
    29447 File
    29448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29449 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29450 subdivision = settings.clipping_cap_subdivision) 
    29451 File
    29452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29453 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29454 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29455 File
    29456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29457 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29458 cm.set_geometry(varray, narray, tarray) 
    29459 File
    29460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29461 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29462 arv() 
    29463 File
    29464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29465 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29466 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29467 File
    29468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29469 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29470 s.vertex_colors = self.vertex_colors(report_stats) 
    29471 File
    29472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29473 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29474 values, outside = self.volume_values() 
    29475 File
    29476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29477 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29478 return self.offset_values(v, n, tf) 
    29479 File
    29480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29481 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29482 values, outside = self.vertex_values(v, xf) 
    29483 File
    29484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29485 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29486 out_of_bounds_list = True) 
    29487 File
    29488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29489 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29490 subregion, step) 
    29491 File
    29492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29493 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29494 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29495 File
    29496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29497 packages/chimerax/map/volume.py", line 1243, in
    29498 matrix_indices_to_xyz_transform 
    29499 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29500 File
    29501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29502 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29503 r = self.subregion(step, subregion) 
    29504 File
    29505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29506 packages/chimerax/map/volume.py", line 1558, in subregion 
    29507 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29508 AttributeError: 'NoneType' object has no attribute 'size' 
    29509  
    29510 AttributeError: 'NoneType' object has no attribute 'size' 
    29511  
    29512 File
    29513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29514 packages/chimerax/map/volume.py", line 1558, in subregion 
    29515 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29516  
    29517 See log for complete Python traceback. 
    29518  
    29519 Traceback (most recent call last): 
    29520 File
    29521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29522 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29523 drew = self.draw_new_frame() 
    29524 File
    29525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29526 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29527 surface.update_clip_caps(view) 
    29528 File
    29529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29530 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29531 subdivision = settings.clipping_cap_subdivision) 
    29532 File
    29533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29534 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29535 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29536 File
    29537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29538 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29539 cm.set_geometry(varray, narray, tarray) 
    29540 File
    29541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29542 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29543 arv() 
    29544 File
    29545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29546 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29547 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29548 File
    29549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29550 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29551 s.vertex_colors = self.vertex_colors(report_stats) 
    29552 File
    29553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29554 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29555 values, outside = self.volume_values() 
    29556 File
    29557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29558 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29559 return self.offset_values(v, n, tf) 
    29560 File
    29561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29562 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29563 values, outside = self.vertex_values(v, xf) 
    29564 File
    29565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29566 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29567 out_of_bounds_list = True) 
    29568 File
    29569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29570 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29571 subregion, step) 
    29572 File
    29573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29574 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29575 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29576 File
    29577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29578 packages/chimerax/map/volume.py", line 1243, in
    29579 matrix_indices_to_xyz_transform 
    29580 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29581 File
    29582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29583 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29584 r = self.subregion(step, subregion) 
    29585 File
    29586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29587 packages/chimerax/map/volume.py", line 1558, in subregion 
    29588 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29589 AttributeError: 'NoneType' object has no attribute 'size' 
    29590  
    29591 AttributeError: 'NoneType' object has no attribute 'size' 
    29592  
    29593 File
    29594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29595 packages/chimerax/map/volume.py", line 1558, in subregion 
    29596 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29597  
    29598 See log for complete Python traceback. 
    29599  
    29600 Traceback (most recent call last): 
    29601 File
    29602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29603 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29604 drew = self.draw_new_frame() 
    29605 File
    29606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29607 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29608 surface.update_clip_caps(view) 
    29609 File
    29610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29611 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29612 subdivision = settings.clipping_cap_subdivision) 
    29613 File
    29614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29615 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29616 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29617 File
    29618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29619 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29620 cm.set_geometry(varray, narray, tarray) 
    29621 File
    29622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29623 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29624 arv() 
    29625 File
    29626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29627 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29628 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29629 File
    29630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29631 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29632 s.vertex_colors = self.vertex_colors(report_stats) 
    29633 File
    29634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29635 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29636 values, outside = self.volume_values() 
    29637 File
    29638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29639 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29640 return self.offset_values(v, n, tf) 
    29641 File
    29642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29643 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29644 values, outside = self.vertex_values(v, xf) 
    29645 File
    29646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29647 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29648 out_of_bounds_list = True) 
    29649 File
    29650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29651 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29652 subregion, step) 
    29653 File
    29654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29655 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29656 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29657 File
    29658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29659 packages/chimerax/map/volume.py", line 1243, in
    29660 matrix_indices_to_xyz_transform 
    29661 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29662 File
    29663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29664 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29665 r = self.subregion(step, subregion) 
    29666 File
    29667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29668 packages/chimerax/map/volume.py", line 1558, in subregion 
    29669 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29670 AttributeError: 'NoneType' object has no attribute 'size' 
    29671  
    29672 AttributeError: 'NoneType' object has no attribute 'size' 
    29673  
    29674 File
    29675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29676 packages/chimerax/map/volume.py", line 1558, in subregion 
    29677 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29678  
    29679 See log for complete Python traceback. 
    29680  
    29681 Traceback (most recent call last): 
    29682 File
    29683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29684 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29685 drew = self.draw_new_frame() 
    29686 File
    29687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29688 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29689 surface.update_clip_caps(view) 
    29690 File
    29691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29692 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29693 subdivision = settings.clipping_cap_subdivision) 
    29694 File
    29695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29696 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29697 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29698 File
    29699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29700 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29701 cm.set_geometry(varray, narray, tarray) 
    29702 File
    29703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29704 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29705 arv() 
    29706 File
    29707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29708 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29709 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29710 File
    29711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29712 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29713 s.vertex_colors = self.vertex_colors(report_stats) 
    29714 File
    29715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29716 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29717 values, outside = self.volume_values() 
    29718 File
    29719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29720 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29721 return self.offset_values(v, n, tf) 
    29722 File
    29723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29724 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29725 values, outside = self.vertex_values(v, xf) 
    29726 File
    29727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29728 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29729 out_of_bounds_list = True) 
    29730 File
    29731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29732 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29733 subregion, step) 
    29734 File
    29735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29736 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29737 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29738 File
    29739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29740 packages/chimerax/map/volume.py", line 1243, in
    29741 matrix_indices_to_xyz_transform 
    29742 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29743 File
    29744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29745 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29746 r = self.subregion(step, subregion) 
    29747 File
    29748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29749 packages/chimerax/map/volume.py", line 1558, in subregion 
    29750 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29751 AttributeError: 'NoneType' object has no attribute 'size' 
    29752  
    29753 AttributeError: 'NoneType' object has no attribute 'size' 
    29754  
    29755 File
    29756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29757 packages/chimerax/map/volume.py", line 1558, in subregion 
    29758 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29759  
    29760 See log for complete Python traceback. 
    29761  
    29762 Traceback (most recent call last): 
    29763 File
    29764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29765 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29766 drew = self.draw_new_frame() 
    29767 File
    29768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29769 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29770 surface.update_clip_caps(view) 
    29771 File
    29772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29773 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29774 subdivision = settings.clipping_cap_subdivision) 
    29775 File
    29776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29777 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29778 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29779 File
    29780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29781 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29782 cm.set_geometry(varray, narray, tarray) 
    29783 File
    29784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29785 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29786 arv() 
    29787 File
    29788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29789 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29790 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29791 File
    29792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29793 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29794 s.vertex_colors = self.vertex_colors(report_stats) 
    29795 File
    29796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29797 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29798 values, outside = self.volume_values() 
    29799 File
    29800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29801 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29802 return self.offset_values(v, n, tf) 
    29803 File
    29804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29805 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29806 values, outside = self.vertex_values(v, xf) 
    29807 File
    29808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29809 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29810 out_of_bounds_list = True) 
    29811 File
    29812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29813 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29814 subregion, step) 
    29815 File
    29816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29817 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29818 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29819 File
    29820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29821 packages/chimerax/map/volume.py", line 1243, in
    29822 matrix_indices_to_xyz_transform 
    29823 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29824 File
    29825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29826 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29827 r = self.subregion(step, subregion) 
    29828 File
    29829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29830 packages/chimerax/map/volume.py", line 1558, in subregion 
    29831 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29832 AttributeError: 'NoneType' object has no attribute 'size' 
    29833  
    29834 AttributeError: 'NoneType' object has no attribute 'size' 
    29835  
    29836 File
    29837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29838 packages/chimerax/map/volume.py", line 1558, in subregion 
    29839 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29840  
    29841 See log for complete Python traceback. 
    29842  
    29843 Traceback (most recent call last): 
    29844 File
    29845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29846 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29847 drew = self.draw_new_frame() 
    29848 File
    29849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29850 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29851 surface.update_clip_caps(view) 
    29852 File
    29853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29854 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29855 subdivision = settings.clipping_cap_subdivision) 
    29856 File
    29857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29858 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29859 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29860 File
    29861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29862 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29863 cm.set_geometry(varray, narray, tarray) 
    29864 File
    29865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29866 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29867 arv() 
    29868 File
    29869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29870 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29871 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29872 File
    29873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29874 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29875 s.vertex_colors = self.vertex_colors(report_stats) 
    29876 File
    29877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29878 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29879 values, outside = self.volume_values() 
    29880 File
    29881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29882 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29883 return self.offset_values(v, n, tf) 
    29884 File
    29885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29886 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29887 values, outside = self.vertex_values(v, xf) 
    29888 File
    29889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29890 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29891 out_of_bounds_list = True) 
    29892 File
    29893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29894 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29895 subregion, step) 
    29896 File
    29897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29898 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29899 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29900 File
    29901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29902 packages/chimerax/map/volume.py", line 1243, in
    29903 matrix_indices_to_xyz_transform 
    29904 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29905 File
    29906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29907 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29908 r = self.subregion(step, subregion) 
    29909 File
    29910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29911 packages/chimerax/map/volume.py", line 1558, in subregion 
    29912 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29913 AttributeError: 'NoneType' object has no attribute 'size' 
    29914  
    29915 AttributeError: 'NoneType' object has no attribute 'size' 
    29916  
    29917 File
    29918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29919 packages/chimerax/map/volume.py", line 1558, in subregion 
    29920 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29921  
    29922 See log for complete Python traceback. 
    29923  
    29924 Traceback (most recent call last): 
    29925 File
    29926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29927 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    29928 drew = self.draw_new_frame() 
    29929 File
    29930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29931 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    29932 surface.update_clip_caps(view) 
    29933 File
    29934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29935 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    29936 subdivision = settings.clipping_cap_subdivision) 
    29937 File
    29938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29939 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    29940 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    29941 File
    29942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29943 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    29944 cm.set_geometry(varray, narray, tarray) 
    29945 File
    29946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29947 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    29948 arv() 
    29949 File
    29950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29951 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    29952 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    29953 File
    29954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29955 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    29956 s.vertex_colors = self.vertex_colors(report_stats) 
    29957 File
    29958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29959 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    29960 values, outside = self.volume_values() 
    29961 File
    29962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29963 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    29964 return self.offset_values(v, n, tf) 
    29965 File
    29966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29967 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    29968 values, outside = self.vertex_values(v, xf) 
    29969 File
    29970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29971 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    29972 out_of_bounds_list = True) 
    29973 File
    29974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29975 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    29976 subregion, step) 
    29977 File
    29978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29979 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    29980 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    29981 File
    29982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29983 packages/chimerax/map/volume.py", line 1243, in
    29984 matrix_indices_to_xyz_transform 
    29985 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    29986 File
    29987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29988 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    29989 r = self.subregion(step, subregion) 
    29990 File
    29991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    29992 packages/chimerax/map/volume.py", line 1558, in subregion 
    29993 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    29994 AttributeError: 'NoneType' object has no attribute 'size' 
    29995  
    29996 AttributeError: 'NoneType' object has no attribute 'size' 
    29997  
    29998 File
    29999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30000 packages/chimerax/map/volume.py", line 1558, in subregion 
    30001 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30002  
    30003 See log for complete Python traceback. 
    30004  
    30005 Traceback (most recent call last): 
    30006 File
    30007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30008 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30009 drew = self.draw_new_frame() 
    30010 File
    30011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30012 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30013 surface.update_clip_caps(view) 
    30014 File
    30015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30016 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30017 subdivision = settings.clipping_cap_subdivision) 
    30018 File
    30019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30020 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30021 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30022 File
    30023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30024 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30025 cm.set_geometry(varray, narray, tarray) 
    30026 File
    30027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30028 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30029 arv() 
    30030 File
    30031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30032 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30033 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30034 File
    30035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30036 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30037 s.vertex_colors = self.vertex_colors(report_stats) 
    30038 File
    30039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30040 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30041 values, outside = self.volume_values() 
    30042 File
    30043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30044 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30045 return self.offset_values(v, n, tf) 
    30046 File
    30047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30048 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30049 values, outside = self.vertex_values(v, xf) 
    30050 File
    30051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30052 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30053 out_of_bounds_list = True) 
    30054 File
    30055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30056 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30057 subregion, step) 
    30058 File
    30059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30060 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30061 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30062 File
    30063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30064 packages/chimerax/map/volume.py", line 1243, in
    30065 matrix_indices_to_xyz_transform 
    30066 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30067 File
    30068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30069 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30070 r = self.subregion(step, subregion) 
    30071 File
    30072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30073 packages/chimerax/map/volume.py", line 1558, in subregion 
    30074 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30075 AttributeError: 'NoneType' object has no attribute 'size' 
    30076  
    30077 AttributeError: 'NoneType' object has no attribute 'size' 
    30078  
    30079 File
    30080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30081 packages/chimerax/map/volume.py", line 1558, in subregion 
    30082 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30083  
    30084 See log for complete Python traceback. 
    30085  
    30086 Traceback (most recent call last): 
    30087 File
    30088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30089 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30090 drew = self.draw_new_frame() 
    30091 File
    30092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30093 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30094 surface.update_clip_caps(view) 
    30095 File
    30096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30097 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30098 subdivision = settings.clipping_cap_subdivision) 
    30099 File
    30100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30101 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30102 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30103 File
    30104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30105 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30106 cm.set_geometry(varray, narray, tarray) 
    30107 File
    30108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30109 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30110 arv() 
    30111 File
    30112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30113 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30114 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30115 File
    30116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30117 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30118 s.vertex_colors = self.vertex_colors(report_stats) 
    30119 File
    30120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30121 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30122 values, outside = self.volume_values() 
    30123 File
    30124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30125 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30126 return self.offset_values(v, n, tf) 
    30127 File
    30128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30129 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30130 values, outside = self.vertex_values(v, xf) 
    30131 File
    30132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30133 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30134 out_of_bounds_list = True) 
    30135 File
    30136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30137 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30138 subregion, step) 
    30139 File
    30140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30141 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30142 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30143 File
    30144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30145 packages/chimerax/map/volume.py", line 1243, in
    30146 matrix_indices_to_xyz_transform 
    30147 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30148 File
    30149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30150 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30151 r = self.subregion(step, subregion) 
    30152 File
    30153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30154 packages/chimerax/map/volume.py", line 1558, in subregion 
    30155 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30156 AttributeError: 'NoneType' object has no attribute 'size' 
    30157  
    30158 AttributeError: 'NoneType' object has no attribute 'size' 
    30159  
    30160 File
    30161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30162 packages/chimerax/map/volume.py", line 1558, in subregion 
    30163 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30164  
    30165 See log for complete Python traceback. 
    30166  
    30167 Traceback (most recent call last): 
    30168 File
    30169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30170 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30171 drew = self.draw_new_frame() 
    30172 File
    30173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30174 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30175 surface.update_clip_caps(view) 
    30176 File
    30177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30178 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30179 subdivision = settings.clipping_cap_subdivision) 
    30180 File
    30181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30182 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30183 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30184 File
    30185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30186 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30187 cm.set_geometry(varray, narray, tarray) 
    30188 File
    30189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30190 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30191 arv() 
    30192 File
    30193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30194 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30195 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30196 File
    30197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30198 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30199 s.vertex_colors = self.vertex_colors(report_stats) 
    30200 File
    30201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30202 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30203 values, outside = self.volume_values() 
    30204 File
    30205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30206 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30207 return self.offset_values(v, n, tf) 
    30208 File
    30209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30210 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30211 values, outside = self.vertex_values(v, xf) 
    30212 File
    30213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30214 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30215 out_of_bounds_list = True) 
    30216 File
    30217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30218 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30219 subregion, step) 
    30220 File
    30221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30222 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30223 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30224 File
    30225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30226 packages/chimerax/map/volume.py", line 1243, in
    30227 matrix_indices_to_xyz_transform 
    30228 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30229 File
    30230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30231 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30232 r = self.subregion(step, subregion) 
    30233 File
    30234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30235 packages/chimerax/map/volume.py", line 1558, in subregion 
    30236 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30237 AttributeError: 'NoneType' object has no attribute 'size' 
    30238  
    30239 AttributeError: 'NoneType' object has no attribute 'size' 
    30240  
    30241 File
    30242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30243 packages/chimerax/map/volume.py", line 1558, in subregion 
    30244 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30245  
    30246 See log for complete Python traceback. 
    30247  
    30248 Traceback (most recent call last): 
    30249 File
    30250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30251 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30252 drew = self.draw_new_frame() 
    30253 File
    30254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30255 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30256 surface.update_clip_caps(view) 
    30257 File
    30258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30259 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30260 subdivision = settings.clipping_cap_subdivision) 
    30261 File
    30262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30263 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30264 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30265 File
    30266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30267 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30268 cm.set_geometry(varray, narray, tarray) 
    30269 File
    30270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30271 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30272 arv() 
    30273 File
    30274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30275 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30276 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30277 File
    30278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30279 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30280 s.vertex_colors = self.vertex_colors(report_stats) 
    30281 File
    30282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30283 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30284 values, outside = self.volume_values() 
    30285 File
    30286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30287 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30288 return self.offset_values(v, n, tf) 
    30289 File
    30290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30291 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30292 values, outside = self.vertex_values(v, xf) 
    30293 File
    30294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30295 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30296 out_of_bounds_list = True) 
    30297 File
    30298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30299 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30300 subregion, step) 
    30301 File
    30302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30303 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30304 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30305 File
    30306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30307 packages/chimerax/map/volume.py", line 1243, in
    30308 matrix_indices_to_xyz_transform 
    30309 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30310 File
    30311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30312 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30313 r = self.subregion(step, subregion) 
    30314 File
    30315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30316 packages/chimerax/map/volume.py", line 1558, in subregion 
    30317 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30318 AttributeError: 'NoneType' object has no attribute 'size' 
    30319  
    30320 AttributeError: 'NoneType' object has no attribute 'size' 
    30321  
    30322 File
    30323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30324 packages/chimerax/map/volume.py", line 1558, in subregion 
    30325 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30326  
    30327 See log for complete Python traceback. 
    30328  
    30329 Traceback (most recent call last): 
    30330 File
    30331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30332 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30333 drew = self.draw_new_frame() 
    30334 File
    30335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30336 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30337 surface.update_clip_caps(view) 
    30338 File
    30339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30340 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30341 subdivision = settings.clipping_cap_subdivision) 
    30342 File
    30343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30344 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30345 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30346 File
    30347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30348 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30349 cm.set_geometry(varray, narray, tarray) 
    30350 File
    30351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30352 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30353 arv() 
    30354 File
    30355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30356 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30357 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30358 File
    30359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30360 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30361 s.vertex_colors = self.vertex_colors(report_stats) 
    30362 File
    30363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30364 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30365 values, outside = self.volume_values() 
    30366 File
    30367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30368 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30369 return self.offset_values(v, n, tf) 
    30370 File
    30371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30372 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30373 values, outside = self.vertex_values(v, xf) 
    30374 File
    30375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30376 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30377 out_of_bounds_list = True) 
    30378 File
    30379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30380 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30381 subregion, step) 
    30382 File
    30383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30384 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30385 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30386 File
    30387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30388 packages/chimerax/map/volume.py", line 1243, in
    30389 matrix_indices_to_xyz_transform 
    30390 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30391 File
    30392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30393 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30394 r = self.subregion(step, subregion) 
    30395 File
    30396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30397 packages/chimerax/map/volume.py", line 1558, in subregion 
    30398 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30399 AttributeError: 'NoneType' object has no attribute 'size' 
    30400  
    30401 AttributeError: 'NoneType' object has no attribute 'size' 
    30402  
    30403 File
    30404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30405 packages/chimerax/map/volume.py", line 1558, in subregion 
    30406 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30407  
    30408 See log for complete Python traceback. 
    30409  
    30410 Traceback (most recent call last): 
    30411 File
    30412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30413 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30414 drew = self.draw_new_frame() 
    30415 File
    30416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30417 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30418 surface.update_clip_caps(view) 
    30419 File
    30420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30421 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30422 subdivision = settings.clipping_cap_subdivision) 
    30423 File
    30424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30425 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30426 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30427 File
    30428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30429 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30430 cm.set_geometry(varray, narray, tarray) 
    30431 File
    30432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30433 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30434 arv() 
    30435 File
    30436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30437 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30438 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30439 File
    30440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30441 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30442 s.vertex_colors = self.vertex_colors(report_stats) 
    30443 File
    30444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30445 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30446 values, outside = self.volume_values() 
    30447 File
    30448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30449 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30450 return self.offset_values(v, n, tf) 
    30451 File
    30452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30453 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30454 values, outside = self.vertex_values(v, xf) 
    30455 File
    30456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30457 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30458 out_of_bounds_list = True) 
    30459 File
    30460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30461 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30462 subregion, step) 
    30463 File
    30464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30465 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30466 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30467 File
    30468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30469 packages/chimerax/map/volume.py", line 1243, in
    30470 matrix_indices_to_xyz_transform 
    30471 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30472 File
    30473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30474 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30475 r = self.subregion(step, subregion) 
    30476 File
    30477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30478 packages/chimerax/map/volume.py", line 1558, in subregion 
    30479 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30480 AttributeError: 'NoneType' object has no attribute 'size' 
    30481  
    30482 AttributeError: 'NoneType' object has no attribute 'size' 
    30483  
    30484 File
    30485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30486 packages/chimerax/map/volume.py", line 1558, in subregion 
    30487 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30488  
    30489 See log for complete Python traceback. 
    30490  
    30491 Traceback (most recent call last): 
    30492 File
    30493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30494 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30495 drew = self.draw_new_frame() 
    30496 File
    30497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30498 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30499 surface.update_clip_caps(view) 
    30500 File
    30501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30502 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30503 subdivision = settings.clipping_cap_subdivision) 
    30504 File
    30505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30506 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30507 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30508 File
    30509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30510 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30511 cm.set_geometry(varray, narray, tarray) 
    30512 File
    30513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30514 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30515 arv() 
    30516 File
    30517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30518 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30519 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30520 File
    30521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30522 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30523 s.vertex_colors = self.vertex_colors(report_stats) 
    30524 File
    30525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30526 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30527 values, outside = self.volume_values() 
    30528 File
    30529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30530 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30531 return self.offset_values(v, n, tf) 
    30532 File
    30533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30534 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30535 values, outside = self.vertex_values(v, xf) 
    30536 File
    30537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30538 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30539 out_of_bounds_list = True) 
    30540 File
    30541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30542 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30543 subregion, step) 
    30544 File
    30545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30546 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30547 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30548 File
    30549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30550 packages/chimerax/map/volume.py", line 1243, in
    30551 matrix_indices_to_xyz_transform 
    30552 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30553 File
    30554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30555 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30556 r = self.subregion(step, subregion) 
    30557 File
    30558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30559 packages/chimerax/map/volume.py", line 1558, in subregion 
    30560 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30561 AttributeError: 'NoneType' object has no attribute 'size' 
    30562  
    30563 AttributeError: 'NoneType' object has no attribute 'size' 
    30564  
    30565 File
    30566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30567 packages/chimerax/map/volume.py", line 1558, in subregion 
    30568 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30569  
    30570 See log for complete Python traceback. 
    30571  
    30572 Traceback (most recent call last): 
    30573 File
    30574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30575 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30576 drew = self.draw_new_frame() 
    30577 File
    30578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30579 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30580 surface.update_clip_caps(view) 
    30581 File
    30582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30583 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30584 subdivision = settings.clipping_cap_subdivision) 
    30585 File
    30586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30587 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30588 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30589 File
    30590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30591 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30592 cm.set_geometry(varray, narray, tarray) 
    30593 File
    30594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30595 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30596 arv() 
    30597 File
    30598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30599 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30600 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30601 File
    30602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30603 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30604 s.vertex_colors = self.vertex_colors(report_stats) 
    30605 File
    30606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30607 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30608 values, outside = self.volume_values() 
    30609 File
    30610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30611 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30612 return self.offset_values(v, n, tf) 
    30613 File
    30614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30615 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30616 values, outside = self.vertex_values(v, xf) 
    30617 File
    30618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30619 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30620 out_of_bounds_list = True) 
    30621 File
    30622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30623 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30624 subregion, step) 
    30625 File
    30626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30627 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30628 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30629 File
    30630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30631 packages/chimerax/map/volume.py", line 1243, in
    30632 matrix_indices_to_xyz_transform 
    30633 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30634 File
    30635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30636 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30637 r = self.subregion(step, subregion) 
    30638 File
    30639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30640 packages/chimerax/map/volume.py", line 1558, in subregion 
    30641 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30642 AttributeError: 'NoneType' object has no attribute 'size' 
    30643  
    30644 AttributeError: 'NoneType' object has no attribute 'size' 
    30645  
    30646 File
    30647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30648 packages/chimerax/map/volume.py", line 1558, in subregion 
    30649 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30650  
    30651 See log for complete Python traceback. 
    30652  
    30653 Traceback (most recent call last): 
    30654 File
    30655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30656 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30657 drew = self.draw_new_frame() 
    30658 File
    30659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30660 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30661 surface.update_clip_caps(view) 
    30662 File
    30663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30664 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30665 subdivision = settings.clipping_cap_subdivision) 
    30666 File
    30667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30668 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30669 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30670 File
    30671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30672 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30673 cm.set_geometry(varray, narray, tarray) 
    30674 File
    30675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30676 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30677 arv() 
    30678 File
    30679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30680 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30681 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30682 File
    30683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30684 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30685 s.vertex_colors = self.vertex_colors(report_stats) 
    30686 File
    30687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30688 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30689 values, outside = self.volume_values() 
    30690 File
    30691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30692 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30693 return self.offset_values(v, n, tf) 
    30694 File
    30695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30696 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30697 values, outside = self.vertex_values(v, xf) 
    30698 File
    30699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30700 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30701 out_of_bounds_list = True) 
    30702 File
    30703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30704 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30705 subregion, step) 
    30706 File
    30707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30708 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30709 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30710 File
    30711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30712 packages/chimerax/map/volume.py", line 1243, in
    30713 matrix_indices_to_xyz_transform 
    30714 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30715 File
    30716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30717 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30718 r = self.subregion(step, subregion) 
    30719 File
    30720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30721 packages/chimerax/map/volume.py", line 1558, in subregion 
    30722 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30723 AttributeError: 'NoneType' object has no attribute 'size' 
    30724  
    30725 AttributeError: 'NoneType' object has no attribute 'size' 
    30726  
    30727 File
    30728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30729 packages/chimerax/map/volume.py", line 1558, in subregion 
    30730 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30731  
    30732 See log for complete Python traceback. 
    30733  
    30734 Traceback (most recent call last): 
    30735 File
    30736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30737 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30738 drew = self.draw_new_frame() 
    30739 File
    30740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30741 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30742 surface.update_clip_caps(view) 
    30743 File
    30744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30745 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30746 subdivision = settings.clipping_cap_subdivision) 
    30747 File
    30748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30749 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30750 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30751 File
    30752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30753 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30754 cm.set_geometry(varray, narray, tarray) 
    30755 File
    30756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30757 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30758 arv() 
    30759 File
    30760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30761 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30762 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30763 File
    30764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30765 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30766 s.vertex_colors = self.vertex_colors(report_stats) 
    30767 File
    30768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30769 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30770 values, outside = self.volume_values() 
    30771 File
    30772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30773 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30774 return self.offset_values(v, n, tf) 
    30775 File
    30776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30777 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30778 values, outside = self.vertex_values(v, xf) 
    30779 File
    30780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30781 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30782 out_of_bounds_list = True) 
    30783 File
    30784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30785 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30786 subregion, step) 
    30787 File
    30788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30789 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30790 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30791 File
    30792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30793 packages/chimerax/map/volume.py", line 1243, in
    30794 matrix_indices_to_xyz_transform 
    30795 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30796 File
    30797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30798 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30799 r = self.subregion(step, subregion) 
    30800 File
    30801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30802 packages/chimerax/map/volume.py", line 1558, in subregion 
    30803 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30804 AttributeError: 'NoneType' object has no attribute 'size' 
    30805  
    30806 AttributeError: 'NoneType' object has no attribute 'size' 
    30807  
    30808 File
    30809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30810 packages/chimerax/map/volume.py", line 1558, in subregion 
    30811 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30812  
    30813 See log for complete Python traceback. 
    30814  
    30815 Traceback (most recent call last): 
    30816 File
    30817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30818 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30819 drew = self.draw_new_frame() 
    30820 File
    30821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30822 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30823 surface.update_clip_caps(view) 
    30824 File
    30825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30826 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30827 subdivision = settings.clipping_cap_subdivision) 
    30828 File
    30829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30830 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30831 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30832 File
    30833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30834 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30835 cm.set_geometry(varray, narray, tarray) 
    30836 File
    30837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30838 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30839 arv() 
    30840 File
    30841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30842 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30843 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30844 File
    30845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30846 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30847 s.vertex_colors = self.vertex_colors(report_stats) 
    30848 File
    30849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30850 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30851 values, outside = self.volume_values() 
    30852 File
    30853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30854 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30855 return self.offset_values(v, n, tf) 
    30856 File
    30857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30858 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30859 values, outside = self.vertex_values(v, xf) 
    30860 File
    30861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30862 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30863 out_of_bounds_list = True) 
    30864 File
    30865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30866 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30867 subregion, step) 
    30868 File
    30869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30870 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30871 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30872 File
    30873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30874 packages/chimerax/map/volume.py", line 1243, in
    30875 matrix_indices_to_xyz_transform 
    30876 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30877 File
    30878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30879 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30880 r = self.subregion(step, subregion) 
    30881 File
    30882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30883 packages/chimerax/map/volume.py", line 1558, in subregion 
    30884 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30885 AttributeError: 'NoneType' object has no attribute 'size' 
    30886  
    30887 AttributeError: 'NoneType' object has no attribute 'size' 
    30888  
    30889 File
    30890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30891 packages/chimerax/map/volume.py", line 1558, in subregion 
    30892 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30893  
    30894 See log for complete Python traceback. 
    30895  
    30896 Traceback (most recent call last): 
    30897 File
    30898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30899 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30900 drew = self.draw_new_frame() 
    30901 File
    30902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30903 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30904 surface.update_clip_caps(view) 
    30905 File
    30906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30907 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30908 subdivision = settings.clipping_cap_subdivision) 
    30909 File
    30910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30911 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30912 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30913 File
    30914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30915 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30916 cm.set_geometry(varray, narray, tarray) 
    30917 File
    30918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30919 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    30920 arv() 
    30921 File
    30922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30923 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    30924 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    30925 File
    30926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30927 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    30928 s.vertex_colors = self.vertex_colors(report_stats) 
    30929 File
    30930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30931 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    30932 values, outside = self.volume_values() 
    30933 File
    30934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30935 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    30936 return self.offset_values(v, n, tf) 
    30937 File
    30938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30939 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    30940 values, outside = self.vertex_values(v, xf) 
    30941 File
    30942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30943 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    30944 out_of_bounds_list = True) 
    30945 File
    30946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30947 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    30948 subregion, step) 
    30949 File
    30950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30951 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    30952 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    30953 File
    30954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30955 packages/chimerax/map/volume.py", line 1243, in
    30956 matrix_indices_to_xyz_transform 
    30957 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    30958 File
    30959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30960 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    30961 r = self.subregion(step, subregion) 
    30962 File
    30963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30964 packages/chimerax/map/volume.py", line 1558, in subregion 
    30965 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30966 AttributeError: 'NoneType' object has no attribute 'size' 
    30967  
    30968 AttributeError: 'NoneType' object has no attribute 'size' 
    30969  
    30970 File
    30971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30972 packages/chimerax/map/volume.py", line 1558, in subregion 
    30973 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    30974  
    30975 See log for complete Python traceback. 
    30976  
    30977 Traceback (most recent call last): 
    30978 File
    30979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30980 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    30981 drew = self.draw_new_frame() 
    30982 File
    30983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30984 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    30985 surface.update_clip_caps(view) 
    30986 File
    30987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30988 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    30989 subdivision = settings.clipping_cap_subdivision) 
    30990 File
    30991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30992 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    30993 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    30994 File
    30995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    30996 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    30997 cm.set_geometry(varray, narray, tarray) 
    30998 File
    30999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31000 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31001 arv() 
    31002 File
    31003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31004 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31005 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31006 File
    31007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31008 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31009 s.vertex_colors = self.vertex_colors(report_stats) 
    31010 File
    31011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31012 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31013 values, outside = self.volume_values() 
    31014 File
    31015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31016 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31017 return self.offset_values(v, n, tf) 
    31018 File
    31019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31020 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31021 values, outside = self.vertex_values(v, xf) 
    31022 File
    31023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31024 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31025 out_of_bounds_list = True) 
    31026 File
    31027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31028 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31029 subregion, step) 
    31030 File
    31031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31032 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31033 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31034 File
    31035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31036 packages/chimerax/map/volume.py", line 1243, in
    31037 matrix_indices_to_xyz_transform 
    31038 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31039 File
    31040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31041 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31042 r = self.subregion(step, subregion) 
    31043 File
    31044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31045 packages/chimerax/map/volume.py", line 1558, in subregion 
    31046 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31047 AttributeError: 'NoneType' object has no attribute 'size' 
    31048  
    31049 AttributeError: 'NoneType' object has no attribute 'size' 
    31050  
    31051 File
    31052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31053 packages/chimerax/map/volume.py", line 1558, in subregion 
    31054 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31055  
    31056 See log for complete Python traceback. 
    31057  
    31058 Traceback (most recent call last): 
    31059 File
    31060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31061 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31062 drew = self.draw_new_frame() 
    31063 File
    31064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31065 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31066 surface.update_clip_caps(view) 
    31067 File
    31068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31069 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31070 subdivision = settings.clipping_cap_subdivision) 
    31071 File
    31072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31073 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31074 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31075 File
    31076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31077 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31078 cm.set_geometry(varray, narray, tarray) 
    31079 File
    31080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31081 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31082 arv() 
    31083 File
    31084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31085 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31086 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31087 File
    31088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31089 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31090 s.vertex_colors = self.vertex_colors(report_stats) 
    31091 File
    31092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31093 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31094 values, outside = self.volume_values() 
    31095 File
    31096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31097 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31098 return self.offset_values(v, n, tf) 
    31099 File
    31100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31101 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31102 values, outside = self.vertex_values(v, xf) 
    31103 File
    31104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31105 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31106 out_of_bounds_list = True) 
    31107 File
    31108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31109 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31110 subregion, step) 
    31111 File
    31112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31113 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31114 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31115 File
    31116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31117 packages/chimerax/map/volume.py", line 1243, in
    31118 matrix_indices_to_xyz_transform 
    31119 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31120 File
    31121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31122 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31123 r = self.subregion(step, subregion) 
    31124 File
    31125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31126 packages/chimerax/map/volume.py", line 1558, in subregion 
    31127 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31128 AttributeError: 'NoneType' object has no attribute 'size' 
    31129  
    31130 AttributeError: 'NoneType' object has no attribute 'size' 
    31131  
    31132 File
    31133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31134 packages/chimerax/map/volume.py", line 1558, in subregion 
    31135 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31136  
    31137 See log for complete Python traceback. 
    31138  
    31139 Traceback (most recent call last): 
    31140 File
    31141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31142 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31143 drew = self.draw_new_frame() 
    31144 File
    31145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31146 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31147 surface.update_clip_caps(view) 
    31148 File
    31149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31150 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31151 subdivision = settings.clipping_cap_subdivision) 
    31152 File
    31153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31154 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31155 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31156 File
    31157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31158 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31159 cm.set_geometry(varray, narray, tarray) 
    31160 File
    31161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31162 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31163 arv() 
    31164 File
    31165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31166 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31167 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31168 File
    31169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31170 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31171 s.vertex_colors = self.vertex_colors(report_stats) 
    31172 File
    31173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31174 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31175 values, outside = self.volume_values() 
    31176 File
    31177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31178 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31179 return self.offset_values(v, n, tf) 
    31180 File
    31181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31182 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31183 values, outside = self.vertex_values(v, xf) 
    31184 File
    31185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31186 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31187 out_of_bounds_list = True) 
    31188 File
    31189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31190 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31191 subregion, step) 
    31192 File
    31193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31194 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31195 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31196 File
    31197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31198 packages/chimerax/map/volume.py", line 1243, in
    31199 matrix_indices_to_xyz_transform 
    31200 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31201 File
    31202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31203 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31204 r = self.subregion(step, subregion) 
    31205 File
    31206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31207 packages/chimerax/map/volume.py", line 1558, in subregion 
    31208 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31209 AttributeError: 'NoneType' object has no attribute 'size' 
    31210  
    31211 AttributeError: 'NoneType' object has no attribute 'size' 
    31212  
    31213 File
    31214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31215 packages/chimerax/map/volume.py", line 1558, in subregion 
    31216 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31217  
    31218 See log for complete Python traceback. 
    31219  
    31220 Traceback (most recent call last): 
    31221 File
    31222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31223 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31224 drew = self.draw_new_frame() 
    31225 File
    31226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31227 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31228 surface.update_clip_caps(view) 
    31229 File
    31230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31231 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31232 subdivision = settings.clipping_cap_subdivision) 
    31233 File
    31234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31235 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31236 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31237 File
    31238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31239 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31240 cm.set_geometry(varray, narray, tarray) 
    31241 File
    31242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31243 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31244 arv() 
    31245 File
    31246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31247 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31248 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31249 File
    31250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31251 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31252 s.vertex_colors = self.vertex_colors(report_stats) 
    31253 File
    31254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31255 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31256 values, outside = self.volume_values() 
    31257 File
    31258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31259 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31260 return self.offset_values(v, n, tf) 
    31261 File
    31262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31263 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31264 values, outside = self.vertex_values(v, xf) 
    31265 File
    31266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31267 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31268 out_of_bounds_list = True) 
    31269 File
    31270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31271 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31272 subregion, step) 
    31273 File
    31274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31275 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31276 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31277 File
    31278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31279 packages/chimerax/map/volume.py", line 1243, in
    31280 matrix_indices_to_xyz_transform 
    31281 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31282 File
    31283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31284 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31285 r = self.subregion(step, subregion) 
    31286 File
    31287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31288 packages/chimerax/map/volume.py", line 1558, in subregion 
    31289 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31290 AttributeError: 'NoneType' object has no attribute 'size' 
    31291  
    31292 AttributeError: 'NoneType' object has no attribute 'size' 
    31293  
    31294 File
    31295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31296 packages/chimerax/map/volume.py", line 1558, in subregion 
    31297 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31298  
    31299 See log for complete Python traceback. 
    31300  
    31301 Traceback (most recent call last): 
    31302 File
    31303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31304 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31305 drew = self.draw_new_frame() 
    31306 File
    31307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31308 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31309 surface.update_clip_caps(view) 
    31310 File
    31311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31312 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31313 subdivision = settings.clipping_cap_subdivision) 
    31314 File
    31315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31316 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31317 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31318 File
    31319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31320 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31321 cm.set_geometry(varray, narray, tarray) 
    31322 File
    31323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31324 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31325 arv() 
    31326 File
    31327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31328 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31329 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31330 File
    31331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31332 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31333 s.vertex_colors = self.vertex_colors(report_stats) 
    31334 File
    31335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31336 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31337 values, outside = self.volume_values() 
    31338 File
    31339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31340 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31341 return self.offset_values(v, n, tf) 
    31342 File
    31343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31344 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31345 values, outside = self.vertex_values(v, xf) 
    31346 File
    31347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31348 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31349 out_of_bounds_list = True) 
    31350 File
    31351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31352 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31353 subregion, step) 
    31354 File
    31355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31356 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31357 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31358 File
    31359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31360 packages/chimerax/map/volume.py", line 1243, in
    31361 matrix_indices_to_xyz_transform 
    31362 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31363 File
    31364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31365 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31366 r = self.subregion(step, subregion) 
    31367 File
    31368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31369 packages/chimerax/map/volume.py", line 1558, in subregion 
    31370 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31371 AttributeError: 'NoneType' object has no attribute 'size' 
    31372  
    31373 AttributeError: 'NoneType' object has no attribute 'size' 
    31374  
    31375 File
    31376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31377 packages/chimerax/map/volume.py", line 1558, in subregion 
    31378 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31379  
    31380 See log for complete Python traceback. 
    31381  
    31382 Traceback (most recent call last): 
    31383 File
    31384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31385 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31386 drew = self.draw_new_frame() 
    31387 File
    31388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31389 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31390 surface.update_clip_caps(view) 
    31391 File
    31392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31393 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31394 subdivision = settings.clipping_cap_subdivision) 
    31395 File
    31396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31397 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31398 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31399 File
    31400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31401 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31402 cm.set_geometry(varray, narray, tarray) 
    31403 File
    31404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31405 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31406 arv() 
    31407 File
    31408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31409 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31410 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31411 File
    31412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31413 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31414 s.vertex_colors = self.vertex_colors(report_stats) 
    31415 File
    31416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31417 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31418 values, outside = self.volume_values() 
    31419 File
    31420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31421 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31422 return self.offset_values(v, n, tf) 
    31423 File
    31424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31425 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31426 values, outside = self.vertex_values(v, xf) 
    31427 File
    31428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31429 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31430 out_of_bounds_list = True) 
    31431 File
    31432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31433 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31434 subregion, step) 
    31435 File
    31436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31437 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31438 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31439 File
    31440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31441 packages/chimerax/map/volume.py", line 1243, in
    31442 matrix_indices_to_xyz_transform 
    31443 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31444 File
    31445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31446 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31447 r = self.subregion(step, subregion) 
    31448 File
    31449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31450 packages/chimerax/map/volume.py", line 1558, in subregion 
    31451 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31452 AttributeError: 'NoneType' object has no attribute 'size' 
    31453  
    31454 AttributeError: 'NoneType' object has no attribute 'size' 
    31455  
    31456 File
    31457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31458 packages/chimerax/map/volume.py", line 1558, in subregion 
    31459 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31460  
    31461 See log for complete Python traceback. 
    31462  
    31463 Traceback (most recent call last): 
    31464 File
    31465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31466 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31467 drew = self.draw_new_frame() 
    31468 File
    31469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31470 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31471 surface.update_clip_caps(view) 
    31472 File
    31473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31474 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31475 subdivision = settings.clipping_cap_subdivision) 
    31476 File
    31477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31478 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31479 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31480 File
    31481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31482 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31483 cm.set_geometry(varray, narray, tarray) 
    31484 File
    31485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31486 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31487 arv() 
    31488 File
    31489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31490 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31491 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31492 File
    31493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31494 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31495 s.vertex_colors = self.vertex_colors(report_stats) 
    31496 File
    31497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31498 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31499 values, outside = self.volume_values() 
    31500 File
    31501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31502 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31503 return self.offset_values(v, n, tf) 
    31504 File
    31505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31506 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31507 values, outside = self.vertex_values(v, xf) 
    31508 File
    31509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31510 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31511 out_of_bounds_list = True) 
    31512 File
    31513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31514 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31515 subregion, step) 
    31516 File
    31517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31518 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31519 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31520 File
    31521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31522 packages/chimerax/map/volume.py", line 1243, in
    31523 matrix_indices_to_xyz_transform 
    31524 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31525 File
    31526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31527 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31528 r = self.subregion(step, subregion) 
    31529 File
    31530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31531 packages/chimerax/map/volume.py", line 1558, in subregion 
    31532 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31533 AttributeError: 'NoneType' object has no attribute 'size' 
    31534  
    31535 AttributeError: 'NoneType' object has no attribute 'size' 
    31536  
    31537 File
    31538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31539 packages/chimerax/map/volume.py", line 1558, in subregion 
    31540 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31541  
    31542 See log for complete Python traceback. 
    31543  
    31544 Traceback (most recent call last): 
    31545 File
    31546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31547 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31548 drew = self.draw_new_frame() 
    31549 File
    31550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31551 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31552 surface.update_clip_caps(view) 
    31553 File
    31554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31555 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31556 subdivision = settings.clipping_cap_subdivision) 
    31557 File
    31558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31559 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31560 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31561 File
    31562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31563 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31564 cm.set_geometry(varray, narray, tarray) 
    31565 File
    31566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31567 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31568 arv() 
    31569 File
    31570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31571 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31572 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31573 File
    31574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31575 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31576 s.vertex_colors = self.vertex_colors(report_stats) 
    31577 File
    31578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31579 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31580 values, outside = self.volume_values() 
    31581 File
    31582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31583 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31584 return self.offset_values(v, n, tf) 
    31585 File
    31586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31587 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31588 values, outside = self.vertex_values(v, xf) 
    31589 File
    31590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31591 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31592 out_of_bounds_list = True) 
    31593 File
    31594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31595 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31596 subregion, step) 
    31597 File
    31598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31599 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31600 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31601 File
    31602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31603 packages/chimerax/map/volume.py", line 1243, in
    31604 matrix_indices_to_xyz_transform 
    31605 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31606 File
    31607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31608 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31609 r = self.subregion(step, subregion) 
    31610 File
    31611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31612 packages/chimerax/map/volume.py", line 1558, in subregion 
    31613 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31614 AttributeError: 'NoneType' object has no attribute 'size' 
    31615  
    31616 AttributeError: 'NoneType' object has no attribute 'size' 
    31617  
    31618 File
    31619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31620 packages/chimerax/map/volume.py", line 1558, in subregion 
    31621 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31622  
    31623 See log for complete Python traceback. 
    31624  
    31625 Traceback (most recent call last): 
    31626 File
    31627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31628 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31629 drew = self.draw_new_frame() 
    31630 File
    31631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31632 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31633 surface.update_clip_caps(view) 
    31634 File
    31635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31636 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31637 subdivision = settings.clipping_cap_subdivision) 
    31638 File
    31639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31640 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31641 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31642 File
    31643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31644 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31645 cm.set_geometry(varray, narray, tarray) 
    31646 File
    31647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31648 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31649 arv() 
    31650 File
    31651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31652 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31653 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31654 File
    31655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31656 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31657 s.vertex_colors = self.vertex_colors(report_stats) 
    31658 File
    31659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31660 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31661 values, outside = self.volume_values() 
    31662 File
    31663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31664 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31665 return self.offset_values(v, n, tf) 
    31666 File
    31667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31668 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31669 values, outside = self.vertex_values(v, xf) 
    31670 File
    31671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31672 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31673 out_of_bounds_list = True) 
    31674 File
    31675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31676 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31677 subregion, step) 
    31678 File
    31679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31680 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31681 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31682 File
    31683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31684 packages/chimerax/map/volume.py", line 1243, in
    31685 matrix_indices_to_xyz_transform 
    31686 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31687 File
    31688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31689 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31690 r = self.subregion(step, subregion) 
    31691 File
    31692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31693 packages/chimerax/map/volume.py", line 1558, in subregion 
    31694 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31695 AttributeError: 'NoneType' object has no attribute 'size' 
    31696  
    31697 AttributeError: 'NoneType' object has no attribute 'size' 
    31698  
    31699 File
    31700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31701 packages/chimerax/map/volume.py", line 1558, in subregion 
    31702 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31703  
    31704 See log for complete Python traceback. 
    31705  
    31706 Traceback (most recent call last): 
    31707 File
    31708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31709 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31710 drew = self.draw_new_frame() 
    31711 File
    31712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31713 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31714 surface.update_clip_caps(view) 
    31715 File
    31716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31717 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31718 subdivision = settings.clipping_cap_subdivision) 
    31719 File
    31720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31721 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31722 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31723 File
    31724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31725 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31726 cm.set_geometry(varray, narray, tarray) 
    31727 File
    31728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31729 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31730 arv() 
    31731 File
    31732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31733 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31734 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31735 File
    31736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31737 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31738 s.vertex_colors = self.vertex_colors(report_stats) 
    31739 File
    31740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31741 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31742 values, outside = self.volume_values() 
    31743 File
    31744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31745 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31746 return self.offset_values(v, n, tf) 
    31747 File
    31748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31749 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31750 values, outside = self.vertex_values(v, xf) 
    31751 File
    31752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31753 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31754 out_of_bounds_list = True) 
    31755 File
    31756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31757 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31758 subregion, step) 
    31759 File
    31760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31761 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31762 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31763 File
    31764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31765 packages/chimerax/map/volume.py", line 1243, in
    31766 matrix_indices_to_xyz_transform 
    31767 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31768 File
    31769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31770 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31771 r = self.subregion(step, subregion) 
    31772 File
    31773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31774 packages/chimerax/map/volume.py", line 1558, in subregion 
    31775 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31776 AttributeError: 'NoneType' object has no attribute 'size' 
    31777  
    31778 AttributeError: 'NoneType' object has no attribute 'size' 
    31779  
    31780 File
    31781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31782 packages/chimerax/map/volume.py", line 1558, in subregion 
    31783 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31784  
    31785 See log for complete Python traceback. 
    31786  
    31787 Traceback (most recent call last): 
    31788 File
    31789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31790 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31791 drew = self.draw_new_frame() 
    31792 File
    31793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31794 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31795 surface.update_clip_caps(view) 
    31796 File
    31797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31798 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31799 subdivision = settings.clipping_cap_subdivision) 
    31800 File
    31801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31802 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31803 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31804 File
    31805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31806 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31807 cm.set_geometry(varray, narray, tarray) 
    31808 File
    31809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31810 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31811 arv() 
    31812 File
    31813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31814 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31815 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31816 File
    31817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31818 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31819 s.vertex_colors = self.vertex_colors(report_stats) 
    31820 File
    31821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31822 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31823 values, outside = self.volume_values() 
    31824 File
    31825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31826 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31827 return self.offset_values(v, n, tf) 
    31828 File
    31829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31830 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31831 values, outside = self.vertex_values(v, xf) 
    31832 File
    31833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31834 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31835 out_of_bounds_list = True) 
    31836 File
    31837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31838 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31839 subregion, step) 
    31840 File
    31841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31842 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31843 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31844 File
    31845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31846 packages/chimerax/map/volume.py", line 1243, in
    31847 matrix_indices_to_xyz_transform 
    31848 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31849 File
    31850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31851 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31852 r = self.subregion(step, subregion) 
    31853 File
    31854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31855 packages/chimerax/map/volume.py", line 1558, in subregion 
    31856 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31857 AttributeError: 'NoneType' object has no attribute 'size' 
    31858  
    31859 AttributeError: 'NoneType' object has no attribute 'size' 
    31860  
    31861 File
    31862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31863 packages/chimerax/map/volume.py", line 1558, in subregion 
    31864 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31865  
    31866 See log for complete Python traceback. 
    31867  
    31868 Traceback (most recent call last): 
    31869 File
    31870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31871 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31872 drew = self.draw_new_frame() 
    31873 File
    31874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31875 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31876 surface.update_clip_caps(view) 
    31877 File
    31878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31879 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31880 subdivision = settings.clipping_cap_subdivision) 
    31881 File
    31882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31883 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31884 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31885 File
    31886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31887 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31888 cm.set_geometry(varray, narray, tarray) 
    31889 File
    31890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31891 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31892 arv() 
    31893 File
    31894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31895 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31896 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31897 File
    31898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31899 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31900 s.vertex_colors = self.vertex_colors(report_stats) 
    31901 File
    31902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31903 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31904 values, outside = self.volume_values() 
    31905 File
    31906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31907 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31908 return self.offset_values(v, n, tf) 
    31909 File
    31910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31911 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31912 values, outside = self.vertex_values(v, xf) 
    31913 File
    31914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31915 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31916 out_of_bounds_list = True) 
    31917 File
    31918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31919 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    31920 subregion, step) 
    31921 File
    31922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31923 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    31924 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    31925 File
    31926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31927 packages/chimerax/map/volume.py", line 1243, in
    31928 matrix_indices_to_xyz_transform 
    31929 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    31930 File
    31931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31932 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    31933 r = self.subregion(step, subregion) 
    31934 File
    31935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31936 packages/chimerax/map/volume.py", line 1558, in subregion 
    31937 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31938 AttributeError: 'NoneType' object has no attribute 'size' 
    31939  
    31940 AttributeError: 'NoneType' object has no attribute 'size' 
    31941  
    31942 File
    31943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31944 packages/chimerax/map/volume.py", line 1558, in subregion 
    31945 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    31946  
    31947 See log for complete Python traceback. 
    31948  
    31949 Traceback (most recent call last): 
    31950 File
    31951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31952 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    31953 drew = self.draw_new_frame() 
    31954 File
    31955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31956 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    31957 surface.update_clip_caps(view) 
    31958 File
    31959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31960 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    31961 subdivision = settings.clipping_cap_subdivision) 
    31962 File
    31963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31964 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    31965 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    31966 File
    31967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31968 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    31969 cm.set_geometry(varray, narray, tarray) 
    31970 File
    31971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31972 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    31973 arv() 
    31974 File
    31975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31976 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    31977 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    31978 File
    31979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31980 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    31981 s.vertex_colors = self.vertex_colors(report_stats) 
    31982 File
    31983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31984 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    31985 values, outside = self.volume_values() 
    31986 File
    31987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31988 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    31989 return self.offset_values(v, n, tf) 
    31990 File
    31991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31992 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    31993 values, outside = self.vertex_values(v, xf) 
    31994 File
    31995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    31996 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    31997 out_of_bounds_list = True) 
    31998 File
    31999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32000 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32001 subregion, step) 
    32002 File
    32003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32004 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32005 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32006 File
    32007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32008 packages/chimerax/map/volume.py", line 1243, in
    32009 matrix_indices_to_xyz_transform 
    32010 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32011 File
    32012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32013 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32014 r = self.subregion(step, subregion) 
    32015 File
    32016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32017 packages/chimerax/map/volume.py", line 1558, in subregion 
    32018 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32019 AttributeError: 'NoneType' object has no attribute 'size' 
    32020  
    32021 AttributeError: 'NoneType' object has no attribute 'size' 
    32022  
    32023 File
    32024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32025 packages/chimerax/map/volume.py", line 1558, in subregion 
    32026 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32027  
    32028 See log for complete Python traceback. 
    32029  
    32030 Traceback (most recent call last): 
    32031 File
    32032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32033 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32034 drew = self.draw_new_frame() 
    32035 File
    32036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32037 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32038 surface.update_clip_caps(view) 
    32039 File
    32040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32041 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32042 subdivision = settings.clipping_cap_subdivision) 
    32043 File
    32044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32045 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32046 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32047 File
    32048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32049 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32050 cm.set_geometry(varray, narray, tarray) 
    32051 File
    32052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32053 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32054 arv() 
    32055 File
    32056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32057 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32058 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32059 File
    32060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32061 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32062 s.vertex_colors = self.vertex_colors(report_stats) 
    32063 File
    32064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32065 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32066 values, outside = self.volume_values() 
    32067 File
    32068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32069 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32070 return self.offset_values(v, n, tf) 
    32071 File
    32072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32073 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32074 values, outside = self.vertex_values(v, xf) 
    32075 File
    32076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32077 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32078 out_of_bounds_list = True) 
    32079 File
    32080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32081 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32082 subregion, step) 
    32083 File
    32084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32085 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32086 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32087 File
    32088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32089 packages/chimerax/map/volume.py", line 1243, in
    32090 matrix_indices_to_xyz_transform 
    32091 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32092 File
    32093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32094 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32095 r = self.subregion(step, subregion) 
    32096 File
    32097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32098 packages/chimerax/map/volume.py", line 1558, in subregion 
    32099 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32100 AttributeError: 'NoneType' object has no attribute 'size' 
    32101  
    32102 AttributeError: 'NoneType' object has no attribute 'size' 
    32103  
    32104 File
    32105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32106 packages/chimerax/map/volume.py", line 1558, in subregion 
    32107 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32108  
    32109 See log for complete Python traceback. 
    32110  
    32111 Traceback (most recent call last): 
    32112 File
    32113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32114 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32115 drew = self.draw_new_frame() 
    32116 File
    32117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32118 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32119 surface.update_clip_caps(view) 
    32120 File
    32121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32122 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32123 subdivision = settings.clipping_cap_subdivision) 
    32124 File
    32125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32126 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32127 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32128 File
    32129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32130 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32131 cm.set_geometry(varray, narray, tarray) 
    32132 File
    32133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32134 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32135 arv() 
    32136 File
    32137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32138 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32139 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32140 File
    32141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32142 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32143 s.vertex_colors = self.vertex_colors(report_stats) 
    32144 File
    32145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32146 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32147 values, outside = self.volume_values() 
    32148 File
    32149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32150 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32151 return self.offset_values(v, n, tf) 
    32152 File
    32153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32154 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32155 values, outside = self.vertex_values(v, xf) 
    32156 File
    32157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32158 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32159 out_of_bounds_list = True) 
    32160 File
    32161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32162 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32163 subregion, step) 
    32164 File
    32165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32166 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32167 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32168 File
    32169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32170 packages/chimerax/map/volume.py", line 1243, in
    32171 matrix_indices_to_xyz_transform 
    32172 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32173 File
    32174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32175 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32176 r = self.subregion(step, subregion) 
    32177 File
    32178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32179 packages/chimerax/map/volume.py", line 1558, in subregion 
    32180 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32181 AttributeError: 'NoneType' object has no attribute 'size' 
    32182  
    32183 AttributeError: 'NoneType' object has no attribute 'size' 
    32184  
    32185 File
    32186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32187 packages/chimerax/map/volume.py", line 1558, in subregion 
    32188 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32189  
    32190 See log for complete Python traceback. 
    32191  
    32192 Traceback (most recent call last): 
    32193 File
    32194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32195 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32196 drew = self.draw_new_frame() 
    32197 File
    32198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32199 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32200 surface.update_clip_caps(view) 
    32201 File
    32202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32203 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32204 subdivision = settings.clipping_cap_subdivision) 
    32205 File
    32206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32207 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32208 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32209 File
    32210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32211 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32212 cm.set_geometry(varray, narray, tarray) 
    32213 File
    32214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32215 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32216 arv() 
    32217 File
    32218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32219 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32220 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32221 File
    32222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32223 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32224 s.vertex_colors = self.vertex_colors(report_stats) 
    32225 File
    32226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32227 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32228 values, outside = self.volume_values() 
    32229 File
    32230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32231 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32232 return self.offset_values(v, n, tf) 
    32233 File
    32234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32235 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32236 values, outside = self.vertex_values(v, xf) 
    32237 File
    32238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32239 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32240 out_of_bounds_list = True) 
    32241 File
    32242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32243 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32244 subregion, step) 
    32245 File
    32246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32247 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32248 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32249 File
    32250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32251 packages/chimerax/map/volume.py", line 1243, in
    32252 matrix_indices_to_xyz_transform 
    32253 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32254 File
    32255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32256 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32257 r = self.subregion(step, subregion) 
    32258 File
    32259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32260 packages/chimerax/map/volume.py", line 1558, in subregion 
    32261 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32262 AttributeError: 'NoneType' object has no attribute 'size' 
    32263  
    32264 AttributeError: 'NoneType' object has no attribute 'size' 
    32265  
    32266 File
    32267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32268 packages/chimerax/map/volume.py", line 1558, in subregion 
    32269 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32270  
    32271 See log for complete Python traceback. 
    32272  
    32273 Traceback (most recent call last): 
    32274 File
    32275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32276 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32277 drew = self.draw_new_frame() 
    32278 File
    32279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32280 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32281 surface.update_clip_caps(view) 
    32282 File
    32283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32284 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32285 subdivision = settings.clipping_cap_subdivision) 
    32286 File
    32287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32288 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32289 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32290 File
    32291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32292 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32293 cm.set_geometry(varray, narray, tarray) 
    32294 File
    32295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32296 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32297 arv() 
    32298 File
    32299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32300 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32301 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32302 File
    32303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32304 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32305 s.vertex_colors = self.vertex_colors(report_stats) 
    32306 File
    32307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32308 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32309 values, outside = self.volume_values() 
    32310 File
    32311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32312 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32313 return self.offset_values(v, n, tf) 
    32314 File
    32315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32316 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32317 values, outside = self.vertex_values(v, xf) 
    32318 File
    32319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32320 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32321 out_of_bounds_list = True) 
    32322 File
    32323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32324 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32325 subregion, step) 
    32326 File
    32327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32328 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32329 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32330 File
    32331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32332 packages/chimerax/map/volume.py", line 1243, in
    32333 matrix_indices_to_xyz_transform 
    32334 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32335 File
    32336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32337 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32338 r = self.subregion(step, subregion) 
    32339 File
    32340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32341 packages/chimerax/map/volume.py", line 1558, in subregion 
    32342 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32343 AttributeError: 'NoneType' object has no attribute 'size' 
    32344  
    32345 AttributeError: 'NoneType' object has no attribute 'size' 
    32346  
    32347 File
    32348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32349 packages/chimerax/map/volume.py", line 1558, in subregion 
    32350 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32351  
    32352 See log for complete Python traceback. 
    32353  
    32354 Traceback (most recent call last): 
    32355 File
    32356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32357 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32358 drew = self.draw_new_frame() 
    32359 File
    32360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32361 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32362 surface.update_clip_caps(view) 
    32363 File
    32364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32365 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32366 subdivision = settings.clipping_cap_subdivision) 
    32367 File
    32368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32369 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32370 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32371 File
    32372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32373 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32374 cm.set_geometry(varray, narray, tarray) 
    32375 File
    32376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32377 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32378 arv() 
    32379 File
    32380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32381 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32382 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32383 File
    32384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32385 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32386 s.vertex_colors = self.vertex_colors(report_stats) 
    32387 File
    32388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32389 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32390 values, outside = self.volume_values() 
    32391 File
    32392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32393 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32394 return self.offset_values(v, n, tf) 
    32395 File
    32396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32397 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32398 values, outside = self.vertex_values(v, xf) 
    32399 File
    32400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32401 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32402 out_of_bounds_list = True) 
    32403 File
    32404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32405 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32406 subregion, step) 
    32407 File
    32408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32409 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32410 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32411 File
    32412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32413 packages/chimerax/map/volume.py", line 1243, in
    32414 matrix_indices_to_xyz_transform 
    32415 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32416 File
    32417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32418 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32419 r = self.subregion(step, subregion) 
    32420 File
    32421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32422 packages/chimerax/map/volume.py", line 1558, in subregion 
    32423 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32424 AttributeError: 'NoneType' object has no attribute 'size' 
    32425  
    32426 AttributeError: 'NoneType' object has no attribute 'size' 
    32427  
    32428 File
    32429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32430 packages/chimerax/map/volume.py", line 1558, in subregion 
    32431 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32432  
    32433 See log for complete Python traceback. 
    32434  
    32435 Traceback (most recent call last): 
    32436 File
    32437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32438 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32439 drew = self.draw_new_frame() 
    32440 File
    32441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32442 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32443 surface.update_clip_caps(view) 
    32444 File
    32445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32446 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32447 subdivision = settings.clipping_cap_subdivision) 
    32448 File
    32449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32450 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32451 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32452 File
    32453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32454 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32455 cm.set_geometry(varray, narray, tarray) 
    32456 File
    32457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32458 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32459 arv() 
    32460 File
    32461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32462 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32463 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32464 File
    32465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32466 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32467 s.vertex_colors = self.vertex_colors(report_stats) 
    32468 File
    32469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32470 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32471 values, outside = self.volume_values() 
    32472 File
    32473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32474 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32475 return self.offset_values(v, n, tf) 
    32476 File
    32477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32478 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32479 values, outside = self.vertex_values(v, xf) 
    32480 File
    32481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32482 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32483 out_of_bounds_list = True) 
    32484 File
    32485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32486 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32487 subregion, step) 
    32488 File
    32489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32490 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32491 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32492 File
    32493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32494 packages/chimerax/map/volume.py", line 1243, in
    32495 matrix_indices_to_xyz_transform 
    32496 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32497 File
    32498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32499 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32500 r = self.subregion(step, subregion) 
    32501 File
    32502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32503 packages/chimerax/map/volume.py", line 1558, in subregion 
    32504 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32505 AttributeError: 'NoneType' object has no attribute 'size' 
    32506  
    32507 AttributeError: 'NoneType' object has no attribute 'size' 
    32508  
    32509 File
    32510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32511 packages/chimerax/map/volume.py", line 1558, in subregion 
    32512 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32513  
    32514 See log for complete Python traceback. 
    32515  
    32516 Traceback (most recent call last): 
    32517 File
    32518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32519 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32520 drew = self.draw_new_frame() 
    32521 File
    32522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32523 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32524 surface.update_clip_caps(view) 
    32525 File
    32526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32527 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32528 subdivision = settings.clipping_cap_subdivision) 
    32529 File
    32530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32531 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32532 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32533 File
    32534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32535 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32536 cm.set_geometry(varray, narray, tarray) 
    32537 File
    32538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32539 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32540 arv() 
    32541 File
    32542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32543 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32544 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32545 File
    32546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32547 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32548 s.vertex_colors = self.vertex_colors(report_stats) 
    32549 File
    32550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32551 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32552 values, outside = self.volume_values() 
    32553 File
    32554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32555 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32556 return self.offset_values(v, n, tf) 
    32557 File
    32558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32559 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32560 values, outside = self.vertex_values(v, xf) 
    32561 File
    32562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32563 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32564 out_of_bounds_list = True) 
    32565 File
    32566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32567 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32568 subregion, step) 
    32569 File
    32570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32571 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32572 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32573 File
    32574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32575 packages/chimerax/map/volume.py", line 1243, in
    32576 matrix_indices_to_xyz_transform 
    32577 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32578 File
    32579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32580 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32581 r = self.subregion(step, subregion) 
    32582 File
    32583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32584 packages/chimerax/map/volume.py", line 1558, in subregion 
    32585 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32586 AttributeError: 'NoneType' object has no attribute 'size' 
    32587  
    32588 AttributeError: 'NoneType' object has no attribute 'size' 
    32589  
    32590 File
    32591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32592 packages/chimerax/map/volume.py", line 1558, in subregion 
    32593 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32594  
    32595 See log for complete Python traceback. 
    32596  
    32597 Traceback (most recent call last): 
    32598 File
    32599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32600 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32601 drew = self.draw_new_frame() 
    32602 File
    32603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32604 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32605 surface.update_clip_caps(view) 
    32606 File
    32607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32608 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32609 subdivision = settings.clipping_cap_subdivision) 
    32610 File
    32611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32612 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32613 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32614 File
    32615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32616 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32617 cm.set_geometry(varray, narray, tarray) 
    32618 File
    32619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32620 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32621 arv() 
    32622 File
    32623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32624 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32625 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32626 File
    32627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32628 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32629 s.vertex_colors = self.vertex_colors(report_stats) 
    32630 File
    32631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32632 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32633 values, outside = self.volume_values() 
    32634 File
    32635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32636 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32637 return self.offset_values(v, n, tf) 
    32638 File
    32639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32640 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32641 values, outside = self.vertex_values(v, xf) 
    32642 File
    32643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32644 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32645 out_of_bounds_list = True) 
    32646 File
    32647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32648 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32649 subregion, step) 
    32650 File
    32651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32652 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32653 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32654 File
    32655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32656 packages/chimerax/map/volume.py", line 1243, in
    32657 matrix_indices_to_xyz_transform 
    32658 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32659 File
    32660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32661 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32662 r = self.subregion(step, subregion) 
    32663 File
    32664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32665 packages/chimerax/map/volume.py", line 1558, in subregion 
    32666 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32667 AttributeError: 'NoneType' object has no attribute 'size' 
    32668  
    32669 AttributeError: 'NoneType' object has no attribute 'size' 
    32670  
    32671 File
    32672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32673 packages/chimerax/map/volume.py", line 1558, in subregion 
    32674 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32675  
    32676 See log for complete Python traceback. 
    32677  
    32678 Traceback (most recent call last): 
    32679 File
    32680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32681 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32682 drew = self.draw_new_frame() 
    32683 File
    32684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32685 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32686 surface.update_clip_caps(view) 
    32687 File
    32688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32689 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32690 subdivision = settings.clipping_cap_subdivision) 
    32691 File
    32692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32693 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32694 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32695 File
    32696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32697 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32698 cm.set_geometry(varray, narray, tarray) 
    32699 File
    32700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32701 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32702 arv() 
    32703 File
    32704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32705 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32706 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32707 File
    32708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32709 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32710 s.vertex_colors = self.vertex_colors(report_stats) 
    32711 File
    32712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32713 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32714 values, outside = self.volume_values() 
    32715 File
    32716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32717 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32718 return self.offset_values(v, n, tf) 
    32719 File
    32720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32721 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32722 values, outside = self.vertex_values(v, xf) 
    32723 File
    32724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32725 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32726 out_of_bounds_list = True) 
    32727 File
    32728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32729 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32730 subregion, step) 
    32731 File
    32732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32733 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32734 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32735 File
    32736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32737 packages/chimerax/map/volume.py", line 1243, in
    32738 matrix_indices_to_xyz_transform 
    32739 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32740 File
    32741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32742 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32743 r = self.subregion(step, subregion) 
    32744 File
    32745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32746 packages/chimerax/map/volume.py", line 1558, in subregion 
    32747 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32748 AttributeError: 'NoneType' object has no attribute 'size' 
    32749  
    32750 AttributeError: 'NoneType' object has no attribute 'size' 
    32751  
    32752 File
    32753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32754 packages/chimerax/map/volume.py", line 1558, in subregion 
    32755 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32756  
    32757 See log for complete Python traceback. 
    32758  
    32759 Traceback (most recent call last): 
    32760 File
    32761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32762 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32763 drew = self.draw_new_frame() 
    32764 File
    32765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32766 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32767 surface.update_clip_caps(view) 
    32768 File
    32769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32770 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32771 subdivision = settings.clipping_cap_subdivision) 
    32772 File
    32773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32774 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32775 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32776 File
    32777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32778 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32779 cm.set_geometry(varray, narray, tarray) 
    32780 File
    32781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32782 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32783 arv() 
    32784 File
    32785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32786 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32787 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32788 File
    32789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32790 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32791 s.vertex_colors = self.vertex_colors(report_stats) 
    32792 File
    32793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32794 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32795 values, outside = self.volume_values() 
    32796 File
    32797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32798 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32799 return self.offset_values(v, n, tf) 
    32800 File
    32801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32802 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32803 values, outside = self.vertex_values(v, xf) 
    32804 File
    32805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32806 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32807 out_of_bounds_list = True) 
    32808 File
    32809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32810 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32811 subregion, step) 
    32812 File
    32813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32814 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32815 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32816 File
    32817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32818 packages/chimerax/map/volume.py", line 1243, in
    32819 matrix_indices_to_xyz_transform 
    32820 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32821 File
    32822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32823 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32824 r = self.subregion(step, subregion) 
    32825 File
    32826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32827 packages/chimerax/map/volume.py", line 1558, in subregion 
    32828 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32829 AttributeError: 'NoneType' object has no attribute 'size' 
    32830  
    32831 AttributeError: 'NoneType' object has no attribute 'size' 
    32832  
    32833 File
    32834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32835 packages/chimerax/map/volume.py", line 1558, in subregion 
    32836 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32837  
    32838 See log for complete Python traceback. 
    32839  
    32840 Traceback (most recent call last): 
    32841 File
    32842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32843 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32844 drew = self.draw_new_frame() 
    32845 File
    32846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32847 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32848 surface.update_clip_caps(view) 
    32849 File
    32850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32851 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32852 subdivision = settings.clipping_cap_subdivision) 
    32853 File
    32854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32855 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32856 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32857 File
    32858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32859 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32860 cm.set_geometry(varray, narray, tarray) 
    32861 File
    32862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32863 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32864 arv() 
    32865 File
    32866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32867 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32868 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32869 File
    32870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32871 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32872 s.vertex_colors = self.vertex_colors(report_stats) 
    32873 File
    32874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32875 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32876 values, outside = self.volume_values() 
    32877 File
    32878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32879 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32880 return self.offset_values(v, n, tf) 
    32881 File
    32882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32883 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32884 values, outside = self.vertex_values(v, xf) 
    32885 File
    32886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32887 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32888 out_of_bounds_list = True) 
    32889 File
    32890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32891 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32892 subregion, step) 
    32893 File
    32894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32895 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32896 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32897 File
    32898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32899 packages/chimerax/map/volume.py", line 1243, in
    32900 matrix_indices_to_xyz_transform 
    32901 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32902 File
    32903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32904 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32905 r = self.subregion(step, subregion) 
    32906 File
    32907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32908 packages/chimerax/map/volume.py", line 1558, in subregion 
    32909 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32910 AttributeError: 'NoneType' object has no attribute 'size' 
    32911  
    32912 AttributeError: 'NoneType' object has no attribute 'size' 
    32913  
    32914 File
    32915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32916 packages/chimerax/map/volume.py", line 1558, in subregion 
    32917 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32918  
    32919 See log for complete Python traceback. 
    32920  
    32921 Traceback (most recent call last): 
    32922 File
    32923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32924 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    32925 drew = self.draw_new_frame() 
    32926 File
    32927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32928 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    32929 surface.update_clip_caps(view) 
    32930 File
    32931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32932 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    32933 subdivision = settings.clipping_cap_subdivision) 
    32934 File
    32935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32936 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    32937 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    32938 File
    32939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32940 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    32941 cm.set_geometry(varray, narray, tarray) 
    32942 File
    32943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32944 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    32945 arv() 
    32946 File
    32947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32948 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    32949 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    32950 File
    32951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32952 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    32953 s.vertex_colors = self.vertex_colors(report_stats) 
    32954 File
    32955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32956 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    32957 values, outside = self.volume_values() 
    32958 File
    32959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32960 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    32961 return self.offset_values(v, n, tf) 
    32962 File
    32963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32964 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    32965 values, outside = self.vertex_values(v, xf) 
    32966 File
    32967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32968 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    32969 out_of_bounds_list = True) 
    32970 File
    32971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32972 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    32973 subregion, step) 
    32974 File
    32975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32976 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    32977 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    32978 File
    32979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32980 packages/chimerax/map/volume.py", line 1243, in
    32981 matrix_indices_to_xyz_transform 
    32982 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    32983 File
    32984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32985 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    32986 r = self.subregion(step, subregion) 
    32987 File
    32988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32989 packages/chimerax/map/volume.py", line 1558, in subregion 
    32990 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32991 AttributeError: 'NoneType' object has no attribute 'size' 
    32992  
    32993 AttributeError: 'NoneType' object has no attribute 'size' 
    32994  
    32995 File
    32996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    32997 packages/chimerax/map/volume.py", line 1558, in subregion 
    32998 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    32999  
    33000 See log for complete Python traceback. 
    33001  
    33002 Traceback (most recent call last): 
    33003 File
    33004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33005 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33006 drew = self.draw_new_frame() 
    33007 File
    33008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33009 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33010 surface.update_clip_caps(view) 
    33011 File
    33012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33013 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33014 subdivision = settings.clipping_cap_subdivision) 
    33015 File
    33016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33017 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33018 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33019 File
    33020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33021 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33022 cm.set_geometry(varray, narray, tarray) 
    33023 File
    33024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33025 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33026 arv() 
    33027 File
    33028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33029 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33030 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33031 File
    33032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33033 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33034 s.vertex_colors = self.vertex_colors(report_stats) 
    33035 File
    33036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33037 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33038 values, outside = self.volume_values() 
    33039 File
    33040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33041 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33042 return self.offset_values(v, n, tf) 
    33043 File
    33044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33045 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33046 values, outside = self.vertex_values(v, xf) 
    33047 File
    33048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33049 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33050 out_of_bounds_list = True) 
    33051 File
    33052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33053 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33054 subregion, step) 
    33055 File
    33056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33057 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33058 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33059 File
    33060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33061 packages/chimerax/map/volume.py", line 1243, in
    33062 matrix_indices_to_xyz_transform 
    33063 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33064 File
    33065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33066 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33067 r = self.subregion(step, subregion) 
    33068 File
    33069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33070 packages/chimerax/map/volume.py", line 1558, in subregion 
    33071 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33072 AttributeError: 'NoneType' object has no attribute 'size' 
    33073  
    33074 AttributeError: 'NoneType' object has no attribute 'size' 
    33075  
    33076 File
    33077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33078 packages/chimerax/map/volume.py", line 1558, in subregion 
    33079 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33080  
    33081 See log for complete Python traceback. 
    33082  
    33083 Traceback (most recent call last): 
    33084 File
    33085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33086 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33087 drew = self.draw_new_frame() 
    33088 File
    33089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33090 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33091 surface.update_clip_caps(view) 
    33092 File
    33093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33094 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33095 subdivision = settings.clipping_cap_subdivision) 
    33096 File
    33097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33098 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33099 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33100 File
    33101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33102 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33103 cm.set_geometry(varray, narray, tarray) 
    33104 File
    33105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33106 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33107 arv() 
    33108 File
    33109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33110 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33111 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33112 File
    33113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33114 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33115 s.vertex_colors = self.vertex_colors(report_stats) 
    33116 File
    33117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33118 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33119 values, outside = self.volume_values() 
    33120 File
    33121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33122 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33123 return self.offset_values(v, n, tf) 
    33124 File
    33125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33126 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33127 values, outside = self.vertex_values(v, xf) 
    33128 File
    33129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33130 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33131 out_of_bounds_list = True) 
    33132 File
    33133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33134 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33135 subregion, step) 
    33136 File
    33137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33138 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33139 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33140 File
    33141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33142 packages/chimerax/map/volume.py", line 1243, in
    33143 matrix_indices_to_xyz_transform 
    33144 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33145 File
    33146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33147 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33148 r = self.subregion(step, subregion) 
    33149 File
    33150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33151 packages/chimerax/map/volume.py", line 1558, in subregion 
    33152 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33153 AttributeError: 'NoneType' object has no attribute 'size' 
    33154  
    33155 AttributeError: 'NoneType' object has no attribute 'size' 
    33156  
    33157 File
    33158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33159 packages/chimerax/map/volume.py", line 1558, in subregion 
    33160 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33161  
    33162 See log for complete Python traceback. 
    33163  
    33164 Traceback (most recent call last): 
    33165 File
    33166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33167 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33168 drew = self.draw_new_frame() 
    33169 File
    33170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33171 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33172 surface.update_clip_caps(view) 
    33173 File
    33174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33175 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33176 subdivision = settings.clipping_cap_subdivision) 
    33177 File
    33178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33179 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33180 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33181 File
    33182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33183 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33184 cm.set_geometry(varray, narray, tarray) 
    33185 File
    33186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33187 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33188 arv() 
    33189 File
    33190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33191 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33192 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33193 File
    33194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33195 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33196 s.vertex_colors = self.vertex_colors(report_stats) 
    33197 File
    33198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33199 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33200 values, outside = self.volume_values() 
    33201 File
    33202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33203 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33204 return self.offset_values(v, n, tf) 
    33205 File
    33206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33207 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33208 values, outside = self.vertex_values(v, xf) 
    33209 File
    33210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33211 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33212 out_of_bounds_list = True) 
    33213 File
    33214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33215 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33216 subregion, step) 
    33217 File
    33218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33219 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33220 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33221 File
    33222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33223 packages/chimerax/map/volume.py", line 1243, in
    33224 matrix_indices_to_xyz_transform 
    33225 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33226 File
    33227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33228 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33229 r = self.subregion(step, subregion) 
    33230 File
    33231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33232 packages/chimerax/map/volume.py", line 1558, in subregion 
    33233 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33234 AttributeError: 'NoneType' object has no attribute 'size' 
    33235  
    33236 AttributeError: 'NoneType' object has no attribute 'size' 
    33237  
    33238 File
    33239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33240 packages/chimerax/map/volume.py", line 1558, in subregion 
    33241 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33242  
    33243 See log for complete Python traceback. 
    33244  
    33245 Traceback (most recent call last): 
    33246 File
    33247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33248 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33249 drew = self.draw_new_frame() 
    33250 File
    33251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33252 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33253 surface.update_clip_caps(view) 
    33254 File
    33255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33256 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33257 subdivision = settings.clipping_cap_subdivision) 
    33258 File
    33259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33260 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33261 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33262 File
    33263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33264 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33265 cm.set_geometry(varray, narray, tarray) 
    33266 File
    33267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33268 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33269 arv() 
    33270 File
    33271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33272 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33273 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33274 File
    33275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33276 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33277 s.vertex_colors = self.vertex_colors(report_stats) 
    33278 File
    33279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33280 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33281 values, outside = self.volume_values() 
    33282 File
    33283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33284 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33285 return self.offset_values(v, n, tf) 
    33286 File
    33287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33288 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33289 values, outside = self.vertex_values(v, xf) 
    33290 File
    33291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33292 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33293 out_of_bounds_list = True) 
    33294 File
    33295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33296 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33297 subregion, step) 
    33298 File
    33299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33300 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33301 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33302 File
    33303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33304 packages/chimerax/map/volume.py", line 1243, in
    33305 matrix_indices_to_xyz_transform 
    33306 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33307 File
    33308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33309 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33310 r = self.subregion(step, subregion) 
    33311 File
    33312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33313 packages/chimerax/map/volume.py", line 1558, in subregion 
    33314 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33315 AttributeError: 'NoneType' object has no attribute 'size' 
    33316  
    33317 AttributeError: 'NoneType' object has no attribute 'size' 
    33318  
    33319 File
    33320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33321 packages/chimerax/map/volume.py", line 1558, in subregion 
    33322 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33323  
    33324 See log for complete Python traceback. 
    33325  
    33326 Traceback (most recent call last): 
    33327 File
    33328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33329 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33330 drew = self.draw_new_frame() 
    33331 File
    33332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33333 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33334 surface.update_clip_caps(view) 
    33335 File
    33336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33337 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33338 subdivision = settings.clipping_cap_subdivision) 
    33339 File
    33340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33341 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33342 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33343 File
    33344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33345 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33346 cm.set_geometry(varray, narray, tarray) 
    33347 File
    33348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33349 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33350 arv() 
    33351 File
    33352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33353 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33354 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33355 File
    33356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33357 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33358 s.vertex_colors = self.vertex_colors(report_stats) 
    33359 File
    33360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33361 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33362 values, outside = self.volume_values() 
    33363 File
    33364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33365 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33366 return self.offset_values(v, n, tf) 
    33367 File
    33368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33369 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33370 values, outside = self.vertex_values(v, xf) 
    33371 File
    33372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33373 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33374 out_of_bounds_list = True) 
    33375 File
    33376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33377 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33378 subregion, step) 
    33379 File
    33380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33381 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33382 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33383 File
    33384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33385 packages/chimerax/map/volume.py", line 1243, in
    33386 matrix_indices_to_xyz_transform 
    33387 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33388 File
    33389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33390 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33391 r = self.subregion(step, subregion) 
    33392 File
    33393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33394 packages/chimerax/map/volume.py", line 1558, in subregion 
    33395 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33396 AttributeError: 'NoneType' object has no attribute 'size' 
    33397  
    33398 AttributeError: 'NoneType' object has no attribute 'size' 
    33399  
    33400 File
    33401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33402 packages/chimerax/map/volume.py", line 1558, in subregion 
    33403 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33404  
    33405 See log for complete Python traceback. 
    33406  
    33407 Traceback (most recent call last): 
    33408 File
    33409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33410 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33411 drew = self.draw_new_frame() 
    33412 File
    33413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33414 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33415 surface.update_clip_caps(view) 
    33416 File
    33417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33418 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33419 subdivision = settings.clipping_cap_subdivision) 
    33420 File
    33421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33422 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33423 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33424 File
    33425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33426 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33427 cm.set_geometry(varray, narray, tarray) 
    33428 File
    33429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33430 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33431 arv() 
    33432 File
    33433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33434 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33435 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33436 File
    33437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33438 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33439 s.vertex_colors = self.vertex_colors(report_stats) 
    33440 File
    33441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33442 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33443 values, outside = self.volume_values() 
    33444 File
    33445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33446 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33447 return self.offset_values(v, n, tf) 
    33448 File
    33449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33450 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33451 values, outside = self.vertex_values(v, xf) 
    33452 File
    33453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33454 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33455 out_of_bounds_list = True) 
    33456 File
    33457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33458 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33459 subregion, step) 
    33460 File
    33461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33462 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33463 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33464 File
    33465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33466 packages/chimerax/map/volume.py", line 1243, in
    33467 matrix_indices_to_xyz_transform 
    33468 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33469 File
    33470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33471 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33472 r = self.subregion(step, subregion) 
    33473 File
    33474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33475 packages/chimerax/map/volume.py", line 1558, in subregion 
    33476 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33477 AttributeError: 'NoneType' object has no attribute 'size' 
    33478  
    33479 AttributeError: 'NoneType' object has no attribute 'size' 
    33480  
    33481 File
    33482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33483 packages/chimerax/map/volume.py", line 1558, in subregion 
    33484 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33485  
    33486 See log for complete Python traceback. 
    33487  
    33488 Traceback (most recent call last): 
    33489 File
    33490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33491 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33492 drew = self.draw_new_frame() 
    33493 File
    33494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33495 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33496 surface.update_clip_caps(view) 
    33497 File
    33498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33499 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33500 subdivision = settings.clipping_cap_subdivision) 
    33501 File
    33502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33503 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33504 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33505 File
    33506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33507 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33508 cm.set_geometry(varray, narray, tarray) 
    33509 File
    33510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33511 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33512 arv() 
    33513 File
    33514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33515 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33516 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33517 File
    33518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33519 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33520 s.vertex_colors = self.vertex_colors(report_stats) 
    33521 File
    33522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33523 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33524 values, outside = self.volume_values() 
    33525 File
    33526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33527 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33528 return self.offset_values(v, n, tf) 
    33529 File
    33530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33531 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33532 values, outside = self.vertex_values(v, xf) 
    33533 File
    33534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33535 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33536 out_of_bounds_list = True) 
    33537 File
    33538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33539 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33540 subregion, step) 
    33541 File
    33542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33543 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33544 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33545 File
    33546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33547 packages/chimerax/map/volume.py", line 1243, in
    33548 matrix_indices_to_xyz_transform 
    33549 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33550 File
    33551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33552 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33553 r = self.subregion(step, subregion) 
    33554 File
    33555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33556 packages/chimerax/map/volume.py", line 1558, in subregion 
    33557 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33558 AttributeError: 'NoneType' object has no attribute 'size' 
    33559  
    33560 AttributeError: 'NoneType' object has no attribute 'size' 
    33561  
    33562 File
    33563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33564 packages/chimerax/map/volume.py", line 1558, in subregion 
    33565 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33566  
    33567 See log for complete Python traceback. 
    33568  
    33569 Traceback (most recent call last): 
    33570 File
    33571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33572 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33573 drew = self.draw_new_frame() 
    33574 File
    33575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33576 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33577 surface.update_clip_caps(view) 
    33578 File
    33579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33580 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33581 subdivision = settings.clipping_cap_subdivision) 
    33582 File
    33583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33584 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33585 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33586 File
    33587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33588 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33589 cm.set_geometry(varray, narray, tarray) 
    33590 File
    33591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33592 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33593 arv() 
    33594 File
    33595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33596 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33597 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33598 File
    33599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33600 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33601 s.vertex_colors = self.vertex_colors(report_stats) 
    33602 File
    33603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33604 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33605 values, outside = self.volume_values() 
    33606 File
    33607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33608 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33609 return self.offset_values(v, n, tf) 
    33610 File
    33611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33612 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33613 values, outside = self.vertex_values(v, xf) 
    33614 File
    33615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33616 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33617 out_of_bounds_list = True) 
    33618 File
    33619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33620 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33621 subregion, step) 
    33622 File
    33623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33624 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33625 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33626 File
    33627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33628 packages/chimerax/map/volume.py", line 1243, in
    33629 matrix_indices_to_xyz_transform 
    33630 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33631 File
    33632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33633 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33634 r = self.subregion(step, subregion) 
    33635 File
    33636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33637 packages/chimerax/map/volume.py", line 1558, in subregion 
    33638 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33639 AttributeError: 'NoneType' object has no attribute 'size' 
    33640  
    33641 AttributeError: 'NoneType' object has no attribute 'size' 
    33642  
    33643 File
    33644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33645 packages/chimerax/map/volume.py", line 1558, in subregion 
    33646 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33647  
    33648 See log for complete Python traceback. 
    33649  
    33650 Traceback (most recent call last): 
    33651 File
    33652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33653 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33654 drew = self.draw_new_frame() 
    33655 File
    33656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33657 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33658 surface.update_clip_caps(view) 
    33659 File
    33660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33661 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33662 subdivision = settings.clipping_cap_subdivision) 
    33663 File
    33664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33665 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33666 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33667 File
    33668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33669 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33670 cm.set_geometry(varray, narray, tarray) 
    33671 File
    33672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33673 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33674 arv() 
    33675 File
    33676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33677 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33678 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33679 File
    33680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33681 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33682 s.vertex_colors = self.vertex_colors(report_stats) 
    33683 File
    33684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33685 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33686 values, outside = self.volume_values() 
    33687 File
    33688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33689 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33690 return self.offset_values(v, n, tf) 
    33691 File
    33692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33693 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33694 values, outside = self.vertex_values(v, xf) 
    33695 File
    33696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33697 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33698 out_of_bounds_list = True) 
    33699 File
    33700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33701 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33702 subregion, step) 
    33703 File
    33704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33705 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33706 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33707 File
    33708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33709 packages/chimerax/map/volume.py", line 1243, in
    33710 matrix_indices_to_xyz_transform 
    33711 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33712 File
    33713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33714 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33715 r = self.subregion(step, subregion) 
    33716 File
    33717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33718 packages/chimerax/map/volume.py", line 1558, in subregion 
    33719 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33720 AttributeError: 'NoneType' object has no attribute 'size' 
    33721  
    33722 AttributeError: 'NoneType' object has no attribute 'size' 
    33723  
    33724 File
    33725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33726 packages/chimerax/map/volume.py", line 1558, in subregion 
    33727 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33728  
    33729 See log for complete Python traceback. 
    33730  
    33731 Traceback (most recent call last): 
    33732 File
    33733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33734 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33735 drew = self.draw_new_frame() 
    33736 File
    33737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33738 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33739 surface.update_clip_caps(view) 
    33740 File
    33741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33742 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33743 subdivision = settings.clipping_cap_subdivision) 
    33744 File
    33745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33746 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33747 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33748 File
    33749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33750 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33751 cm.set_geometry(varray, narray, tarray) 
    33752 File
    33753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33754 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33755 arv() 
    33756 File
    33757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33758 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33759 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33760 File
    33761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33762 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33763 s.vertex_colors = self.vertex_colors(report_stats) 
    33764 File
    33765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33766 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33767 values, outside = self.volume_values() 
    33768 File
    33769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33770 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33771 return self.offset_values(v, n, tf) 
    33772 File
    33773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33774 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33775 values, outside = self.vertex_values(v, xf) 
    33776 File
    33777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33778 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33779 out_of_bounds_list = True) 
    33780 File
    33781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33782 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33783 subregion, step) 
    33784 File
    33785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33786 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33787 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33788 File
    33789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33790 packages/chimerax/map/volume.py", line 1243, in
    33791 matrix_indices_to_xyz_transform 
    33792 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33793 File
    33794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33795 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33796 r = self.subregion(step, subregion) 
    33797 File
    33798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33799 packages/chimerax/map/volume.py", line 1558, in subregion 
    33800 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33801 AttributeError: 'NoneType' object has no attribute 'size' 
    33802  
    33803 AttributeError: 'NoneType' object has no attribute 'size' 
    33804  
    33805 File
    33806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33807 packages/chimerax/map/volume.py", line 1558, in subregion 
    33808 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33809  
    33810 See log for complete Python traceback. 
    33811  
    33812 Traceback (most recent call last): 
    33813 File
    33814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33815 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33816 drew = self.draw_new_frame() 
    33817 File
    33818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33819 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33820 surface.update_clip_caps(view) 
    33821 File
    33822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33823 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33824 subdivision = settings.clipping_cap_subdivision) 
    33825 File
    33826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33827 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33828 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33829 File
    33830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33831 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33832 cm.set_geometry(varray, narray, tarray) 
    33833 File
    33834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33835 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33836 arv() 
    33837 File
    33838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33839 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33840 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33841 File
    33842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33843 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33844 s.vertex_colors = self.vertex_colors(report_stats) 
    33845 File
    33846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33847 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33848 values, outside = self.volume_values() 
    33849 File
    33850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33851 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33852 return self.offset_values(v, n, tf) 
    33853 File
    33854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33855 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33856 values, outside = self.vertex_values(v, xf) 
    33857 File
    33858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33859 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33860 out_of_bounds_list = True) 
    33861 File
    33862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33863 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33864 subregion, step) 
    33865 File
    33866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33867 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33868 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33869 File
    33870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33871 packages/chimerax/map/volume.py", line 1243, in
    33872 matrix_indices_to_xyz_transform 
    33873 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33874 File
    33875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33876 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33877 r = self.subregion(step, subregion) 
    33878 File
    33879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33880 packages/chimerax/map/volume.py", line 1558, in subregion 
    33881 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33882 AttributeError: 'NoneType' object has no attribute 'size' 
    33883  
    33884 AttributeError: 'NoneType' object has no attribute 'size' 
    33885  
    33886 File
    33887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33888 packages/chimerax/map/volume.py", line 1558, in subregion 
    33889 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33890  
    33891 See log for complete Python traceback. 
    33892  
    33893 Traceback (most recent call last): 
    33894 File
    33895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33896 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33897 drew = self.draw_new_frame() 
    33898 File
    33899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33900 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33901 surface.update_clip_caps(view) 
    33902 File
    33903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33904 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33905 subdivision = settings.clipping_cap_subdivision) 
    33906 File
    33907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33908 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33909 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33910 File
    33911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33912 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33913 cm.set_geometry(varray, narray, tarray) 
    33914 File
    33915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33916 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33917 arv() 
    33918 File
    33919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33920 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    33921 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    33922 File
    33923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33924 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    33925 s.vertex_colors = self.vertex_colors(report_stats) 
    33926 File
    33927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33928 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    33929 values, outside = self.volume_values() 
    33930 File
    33931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33932 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    33933 return self.offset_values(v, n, tf) 
    33934 File
    33935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33936 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    33937 values, outside = self.vertex_values(v, xf) 
    33938 File
    33939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33940 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    33941 out_of_bounds_list = True) 
    33942 File
    33943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33944 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    33945 subregion, step) 
    33946 File
    33947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33948 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    33949 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    33950 File
    33951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33952 packages/chimerax/map/volume.py", line 1243, in
    33953 matrix_indices_to_xyz_transform 
    33954 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    33955 File
    33956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33957 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    33958 r = self.subregion(step, subregion) 
    33959 File
    33960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33961 packages/chimerax/map/volume.py", line 1558, in subregion 
    33962 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33963 AttributeError: 'NoneType' object has no attribute 'size' 
    33964  
    33965 AttributeError: 'NoneType' object has no attribute 'size' 
    33966  
    33967 File
    33968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33969 packages/chimerax/map/volume.py", line 1558, in subregion 
    33970 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    33971  
    33972 See log for complete Python traceback. 
    33973  
    33974 Traceback (most recent call last): 
    33975 File
    33976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33977 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    33978 drew = self.draw_new_frame() 
    33979 File
    33980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33981 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    33982 surface.update_clip_caps(view) 
    33983 File
    33984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33985 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    33986 subdivision = settings.clipping_cap_subdivision) 
    33987 File
    33988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33989 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    33990 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    33991 File
    33992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33993 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    33994 cm.set_geometry(varray, narray, tarray) 
    33995 File
    33996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    33997 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    33998 arv() 
    33999 File
    34000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34001 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34002 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34003 File
    34004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34005 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34006 s.vertex_colors = self.vertex_colors(report_stats) 
    34007 File
    34008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34009 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34010 values, outside = self.volume_values() 
    34011 File
    34012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34013 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34014 return self.offset_values(v, n, tf) 
    34015 File
    34016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34017 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34018 values, outside = self.vertex_values(v, xf) 
    34019 File
    34020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34021 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34022 out_of_bounds_list = True) 
    34023 File
    34024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34025 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34026 subregion, step) 
    34027 File
    34028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34029 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34030 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34031 File
    34032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34033 packages/chimerax/map/volume.py", line 1243, in
    34034 matrix_indices_to_xyz_transform 
    34035 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34036 File
    34037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34038 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34039 r = self.subregion(step, subregion) 
    34040 File
    34041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34042 packages/chimerax/map/volume.py", line 1558, in subregion 
    34043 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34044 AttributeError: 'NoneType' object has no attribute 'size' 
    34045  
    34046 AttributeError: 'NoneType' object has no attribute 'size' 
    34047  
    34048 File
    34049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34050 packages/chimerax/map/volume.py", line 1558, in subregion 
    34051 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34052  
    34053 See log for complete Python traceback. 
    34054  
    34055 Traceback (most recent call last): 
    34056 File
    34057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34058 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34059 drew = self.draw_new_frame() 
    34060 File
    34061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34062 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34063 surface.update_clip_caps(view) 
    34064 File
    34065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34066 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34067 subdivision = settings.clipping_cap_subdivision) 
    34068 File
    34069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34070 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34071 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34072 File
    34073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34074 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34075 cm.set_geometry(varray, narray, tarray) 
    34076 File
    34077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34078 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34079 arv() 
    34080 File
    34081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34082 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34083 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34084 File
    34085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34086 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34087 s.vertex_colors = self.vertex_colors(report_stats) 
    34088 File
    34089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34090 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34091 values, outside = self.volume_values() 
    34092 File
    34093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34094 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34095 return self.offset_values(v, n, tf) 
    34096 File
    34097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34098 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34099 values, outside = self.vertex_values(v, xf) 
    34100 File
    34101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34102 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34103 out_of_bounds_list = True) 
    34104 File
    34105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34106 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34107 subregion, step) 
    34108 File
    34109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34110 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34111 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34112 File
    34113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34114 packages/chimerax/map/volume.py", line 1243, in
    34115 matrix_indices_to_xyz_transform 
    34116 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34117 File
    34118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34119 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34120 r = self.subregion(step, subregion) 
    34121 File
    34122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34123 packages/chimerax/map/volume.py", line 1558, in subregion 
    34124 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34125 AttributeError: 'NoneType' object has no attribute 'size' 
    34126  
    34127 AttributeError: 'NoneType' object has no attribute 'size' 
    34128  
    34129 File
    34130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34131 packages/chimerax/map/volume.py", line 1558, in subregion 
    34132 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34133  
    34134 See log for complete Python traceback. 
    34135  
    34136 Traceback (most recent call last): 
    34137 File
    34138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34139 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34140 drew = self.draw_new_frame() 
    34141 File
    34142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34143 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34144 surface.update_clip_caps(view) 
    34145 File
    34146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34147 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34148 subdivision = settings.clipping_cap_subdivision) 
    34149 File
    34150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34151 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34152 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34153 File
    34154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34155 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34156 cm.set_geometry(varray, narray, tarray) 
    34157 File
    34158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34159 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34160 arv() 
    34161 File
    34162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34163 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34164 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34165 File
    34166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34167 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34168 s.vertex_colors = self.vertex_colors(report_stats) 
    34169 File
    34170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34171 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34172 values, outside = self.volume_values() 
    34173 File
    34174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34175 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34176 return self.offset_values(v, n, tf) 
    34177 File
    34178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34179 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34180 values, outside = self.vertex_values(v, xf) 
    34181 File
    34182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34183 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34184 out_of_bounds_list = True) 
    34185 File
    34186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34187 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34188 subregion, step) 
    34189 File
    34190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34191 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34192 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34193 File
    34194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34195 packages/chimerax/map/volume.py", line 1243, in
    34196 matrix_indices_to_xyz_transform 
    34197 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34198 File
    34199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34200 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34201 r = self.subregion(step, subregion) 
    34202 File
    34203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34204 packages/chimerax/map/volume.py", line 1558, in subregion 
    34205 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34206 AttributeError: 'NoneType' object has no attribute 'size' 
    34207  
    34208 AttributeError: 'NoneType' object has no attribute 'size' 
    34209  
    34210 File
    34211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34212 packages/chimerax/map/volume.py", line 1558, in subregion 
    34213 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34214  
    34215 See log for complete Python traceback. 
    34216  
    34217 Traceback (most recent call last): 
    34218 File
    34219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34220 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34221 drew = self.draw_new_frame() 
    34222 File
    34223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34224 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34225 surface.update_clip_caps(view) 
    34226 File
    34227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34228 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34229 subdivision = settings.clipping_cap_subdivision) 
    34230 File
    34231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34232 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34233 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34234 File
    34235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34236 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34237 cm.set_geometry(varray, narray, tarray) 
    34238 File
    34239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34240 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34241 arv() 
    34242 File
    34243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34244 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34245 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34246 File
    34247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34248 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34249 s.vertex_colors = self.vertex_colors(report_stats) 
    34250 File
    34251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34252 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34253 values, outside = self.volume_values() 
    34254 File
    34255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34256 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34257 return self.offset_values(v, n, tf) 
    34258 File
    34259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34260 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34261 values, outside = self.vertex_values(v, xf) 
    34262 File
    34263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34264 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34265 out_of_bounds_list = True) 
    34266 File
    34267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34268 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34269 subregion, step) 
    34270 File
    34271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34272 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34273 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34274 File
    34275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34276 packages/chimerax/map/volume.py", line 1243, in
    34277 matrix_indices_to_xyz_transform 
    34278 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34279 File
    34280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34281 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34282 r = self.subregion(step, subregion) 
    34283 File
    34284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34285 packages/chimerax/map/volume.py", line 1558, in subregion 
    34286 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34287 AttributeError: 'NoneType' object has no attribute 'size' 
    34288  
    34289 AttributeError: 'NoneType' object has no attribute 'size' 
    34290  
    34291 File
    34292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34293 packages/chimerax/map/volume.py", line 1558, in subregion 
    34294 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34295  
    34296 See log for complete Python traceback. 
    34297  
    34298 Traceback (most recent call last): 
    34299 File
    34300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34301 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34302 drew = self.draw_new_frame() 
    34303 File
    34304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34305 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34306 surface.update_clip_caps(view) 
    34307 File
    34308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34309 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34310 subdivision = settings.clipping_cap_subdivision) 
    34311 File
    34312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34313 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34314 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34315 File
    34316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34317 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34318 cm.set_geometry(varray, narray, tarray) 
    34319 File
    34320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34321 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34322 arv() 
    34323 File
    34324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34325 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34326 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34327 File
    34328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34329 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34330 s.vertex_colors = self.vertex_colors(report_stats) 
    34331 File
    34332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34333 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34334 values, outside = self.volume_values() 
    34335 File
    34336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34337 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34338 return self.offset_values(v, n, tf) 
    34339 File
    34340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34341 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34342 values, outside = self.vertex_values(v, xf) 
    34343 File
    34344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34345 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34346 out_of_bounds_list = True) 
    34347 File
    34348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34349 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34350 subregion, step) 
    34351 File
    34352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34353 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34354 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34355 File
    34356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34357 packages/chimerax/map/volume.py", line 1243, in
    34358 matrix_indices_to_xyz_transform 
    34359 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34360 File
    34361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34362 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34363 r = self.subregion(step, subregion) 
    34364 File
    34365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34366 packages/chimerax/map/volume.py", line 1558, in subregion 
    34367 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34368 AttributeError: 'NoneType' object has no attribute 'size' 
    34369  
    34370 AttributeError: 'NoneType' object has no attribute 'size' 
    34371  
    34372 File
    34373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34374 packages/chimerax/map/volume.py", line 1558, in subregion 
    34375 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34376  
    34377 See log for complete Python traceback. 
    34378  
    34379 Traceback (most recent call last): 
    34380 File
    34381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34382 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34383 drew = self.draw_new_frame() 
    34384 File
    34385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34386 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34387 surface.update_clip_caps(view) 
    34388 File
    34389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34390 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34391 subdivision = settings.clipping_cap_subdivision) 
    34392 File
    34393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34394 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34395 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34396 File
    34397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34398 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34399 cm.set_geometry(varray, narray, tarray) 
    34400 File
    34401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34402 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34403 arv() 
    34404 File
    34405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34406 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34407 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34408 File
    34409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34410 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34411 s.vertex_colors = self.vertex_colors(report_stats) 
    34412 File
    34413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34414 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34415 values, outside = self.volume_values() 
    34416 File
    34417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34418 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34419 return self.offset_values(v, n, tf) 
    34420 File
    34421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34422 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34423 values, outside = self.vertex_values(v, xf) 
    34424 File
    34425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34426 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34427 out_of_bounds_list = True) 
    34428 File
    34429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34430 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34431 subregion, step) 
    34432 File
    34433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34434 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34435 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34436 File
    34437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34438 packages/chimerax/map/volume.py", line 1243, in
    34439 matrix_indices_to_xyz_transform 
    34440 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34441 File
    34442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34443 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34444 r = self.subregion(step, subregion) 
    34445 File
    34446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34447 packages/chimerax/map/volume.py", line 1558, in subregion 
    34448 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34449 AttributeError: 'NoneType' object has no attribute 'size' 
    34450  
    34451 AttributeError: 'NoneType' object has no attribute 'size' 
    34452  
    34453 File
    34454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34455 packages/chimerax/map/volume.py", line 1558, in subregion 
    34456 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34457  
    34458 See log for complete Python traceback. 
    34459  
    34460 Traceback (most recent call last): 
    34461 File
    34462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34463 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34464 drew = self.draw_new_frame() 
    34465 File
    34466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34467 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34468 surface.update_clip_caps(view) 
    34469 File
    34470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34471 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34472 subdivision = settings.clipping_cap_subdivision) 
    34473 File
    34474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34475 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34476 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34477 File
    34478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34479 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34480 cm.set_geometry(varray, narray, tarray) 
    34481 File
    34482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34483 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34484 arv() 
    34485 File
    34486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34487 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34488 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34489 File
    34490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34491 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34492 s.vertex_colors = self.vertex_colors(report_stats) 
    34493 File
    34494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34495 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34496 values, outside = self.volume_values() 
    34497 File
    34498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34499 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34500 return self.offset_values(v, n, tf) 
    34501 File
    34502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34503 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34504 values, outside = self.vertex_values(v, xf) 
    34505 File
    34506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34507 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34508 out_of_bounds_list = True) 
    34509 File
    34510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34511 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34512 subregion, step) 
    34513 File
    34514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34515 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34516 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34517 File
    34518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34519 packages/chimerax/map/volume.py", line 1243, in
    34520 matrix_indices_to_xyz_transform 
    34521 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34522 File
    34523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34524 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34525 r = self.subregion(step, subregion) 
    34526 File
    34527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34528 packages/chimerax/map/volume.py", line 1558, in subregion 
    34529 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34530 AttributeError: 'NoneType' object has no attribute 'size' 
    34531  
    34532 AttributeError: 'NoneType' object has no attribute 'size' 
    34533  
    34534 File
    34535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34536 packages/chimerax/map/volume.py", line 1558, in subregion 
    34537 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34538  
    34539 See log for complete Python traceback. 
    34540  
    34541 Traceback (most recent call last): 
    34542 File
    34543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34544 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34545 drew = self.draw_new_frame() 
    34546 File
    34547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34548 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34549 surface.update_clip_caps(view) 
    34550 File
    34551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34552 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34553 subdivision = settings.clipping_cap_subdivision) 
    34554 File
    34555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34556 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34557 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34558 File
    34559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34560 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34561 cm.set_geometry(varray, narray, tarray) 
    34562 File
    34563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34564 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34565 arv() 
    34566 File
    34567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34568 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34569 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34570 File
    34571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34572 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34573 s.vertex_colors = self.vertex_colors(report_stats) 
    34574 File
    34575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34576 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34577 values, outside = self.volume_values() 
    34578 File
    34579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34580 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34581 return self.offset_values(v, n, tf) 
    34582 File
    34583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34584 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34585 values, outside = self.vertex_values(v, xf) 
    34586 File
    34587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34588 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34589 out_of_bounds_list = True) 
    34590 File
    34591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34592 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34593 subregion, step) 
    34594 File
    34595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34596 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34597 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34598 File
    34599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34600 packages/chimerax/map/volume.py", line 1243, in
    34601 matrix_indices_to_xyz_transform 
    34602 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34603 File
    34604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34605 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34606 r = self.subregion(step, subregion) 
    34607 File
    34608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34609 packages/chimerax/map/volume.py", line 1558, in subregion 
    34610 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34611 AttributeError: 'NoneType' object has no attribute 'size' 
    34612  
    34613 AttributeError: 'NoneType' object has no attribute 'size' 
    34614  
    34615 File
    34616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34617 packages/chimerax/map/volume.py", line 1558, in subregion 
    34618 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34619  
    34620 See log for complete Python traceback. 
    34621  
    34622 Traceback (most recent call last): 
    34623 File
    34624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34625 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34626 drew = self.draw_new_frame() 
    34627 File
    34628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34629 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34630 surface.update_clip_caps(view) 
    34631 File
    34632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34633 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34634 subdivision = settings.clipping_cap_subdivision) 
    34635 File
    34636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34637 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34638 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34639 File
    34640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34641 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34642 cm.set_geometry(varray, narray, tarray) 
    34643 File
    34644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34645 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34646 arv() 
    34647 File
    34648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34649 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34650 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34651 File
    34652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34653 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34654 s.vertex_colors = self.vertex_colors(report_stats) 
    34655 File
    34656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34657 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34658 values, outside = self.volume_values() 
    34659 File
    34660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34661 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34662 return self.offset_values(v, n, tf) 
    34663 File
    34664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34665 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34666 values, outside = self.vertex_values(v, xf) 
    34667 File
    34668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34669 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34670 out_of_bounds_list = True) 
    34671 File
    34672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34673 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34674 subregion, step) 
    34675 File
    34676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34677 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34678 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34679 File
    34680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34681 packages/chimerax/map/volume.py", line 1243, in
    34682 matrix_indices_to_xyz_transform 
    34683 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34684 File
    34685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34686 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34687 r = self.subregion(step, subregion) 
    34688 File
    34689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34690 packages/chimerax/map/volume.py", line 1558, in subregion 
    34691 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34692 AttributeError: 'NoneType' object has no attribute 'size' 
    34693  
    34694 AttributeError: 'NoneType' object has no attribute 'size' 
    34695  
    34696 File
    34697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34698 packages/chimerax/map/volume.py", line 1558, in subregion 
    34699 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34700  
    34701 See log for complete Python traceback. 
    34702  
    34703 Traceback (most recent call last): 
    34704 File
    34705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34706 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34707 drew = self.draw_new_frame() 
    34708 File
    34709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34710 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34711 surface.update_clip_caps(view) 
    34712 File
    34713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34714 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34715 subdivision = settings.clipping_cap_subdivision) 
    34716 File
    34717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34718 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34719 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34720 File
    34721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34722 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34723 cm.set_geometry(varray, narray, tarray) 
    34724 File
    34725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34726 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34727 arv() 
    34728 File
    34729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34730 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34731 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34732 File
    34733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34734 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34735 s.vertex_colors = self.vertex_colors(report_stats) 
    34736 File
    34737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34738 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34739 values, outside = self.volume_values() 
    34740 File
    34741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34742 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34743 return self.offset_values(v, n, tf) 
    34744 File
    34745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34746 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34747 values, outside = self.vertex_values(v, xf) 
    34748 File
    34749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34750 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34751 out_of_bounds_list = True) 
    34752 File
    34753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34754 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34755 subregion, step) 
    34756 File
    34757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34758 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34759 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34760 File
    34761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34762 packages/chimerax/map/volume.py", line 1243, in
    34763 matrix_indices_to_xyz_transform 
    34764 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34765 File
    34766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34767 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34768 r = self.subregion(step, subregion) 
    34769 File
    34770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34771 packages/chimerax/map/volume.py", line 1558, in subregion 
    34772 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34773 AttributeError: 'NoneType' object has no attribute 'size' 
    34774  
    34775 AttributeError: 'NoneType' object has no attribute 'size' 
    34776  
    34777 File
    34778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34779 packages/chimerax/map/volume.py", line 1558, in subregion 
    34780 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34781  
    34782 See log for complete Python traceback. 
    34783  
    34784 Traceback (most recent call last): 
    34785 File
    34786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34787 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34788 drew = self.draw_new_frame() 
    34789 File
    34790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34791 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34792 surface.update_clip_caps(view) 
    34793 File
    34794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34795 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34796 subdivision = settings.clipping_cap_subdivision) 
    34797 File
    34798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34799 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34800 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34801 File
    34802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34803 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34804 cm.set_geometry(varray, narray, tarray) 
    34805 File
    34806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34807 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34808 arv() 
    34809 File
    34810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34811 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34812 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34813 File
    34814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34815 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34816 s.vertex_colors = self.vertex_colors(report_stats) 
    34817 File
    34818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34819 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34820 values, outside = self.volume_values() 
    34821 File
    34822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34823 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34824 return self.offset_values(v, n, tf) 
    34825 File
    34826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34827 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34828 values, outside = self.vertex_values(v, xf) 
    34829 File
    34830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34831 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34832 out_of_bounds_list = True) 
    34833 File
    34834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34835 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34836 subregion, step) 
    34837 File
    34838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34839 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34840 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34841 File
    34842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34843 packages/chimerax/map/volume.py", line 1243, in
    34844 matrix_indices_to_xyz_transform 
    34845 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34846 File
    34847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34848 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34849 r = self.subregion(step, subregion) 
    34850 File
    34851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34852 packages/chimerax/map/volume.py", line 1558, in subregion 
    34853 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34854 AttributeError: 'NoneType' object has no attribute 'size' 
    34855  
    34856 AttributeError: 'NoneType' object has no attribute 'size' 
    34857  
    34858 File
    34859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34860 packages/chimerax/map/volume.py", line 1558, in subregion 
    34861 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34862  
    34863 See log for complete Python traceback. 
    34864  
    34865 Traceback (most recent call last): 
    34866 File
    34867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34868 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34869 drew = self.draw_new_frame() 
    34870 File
    34871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34872 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34873 surface.update_clip_caps(view) 
    34874 File
    34875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34876 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34877 subdivision = settings.clipping_cap_subdivision) 
    34878 File
    34879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34880 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34881 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34882 File
    34883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34884 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34885 cm.set_geometry(varray, narray, tarray) 
    34886 File
    34887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34888 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34889 arv() 
    34890 File
    34891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34892 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34893 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34894 File
    34895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34896 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34897 s.vertex_colors = self.vertex_colors(report_stats) 
    34898 File
    34899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34900 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34901 values, outside = self.volume_values() 
    34902 File
    34903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34904 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34905 return self.offset_values(v, n, tf) 
    34906 File
    34907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34908 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34909 values, outside = self.vertex_values(v, xf) 
    34910 File
    34911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34912 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34913 out_of_bounds_list = True) 
    34914 File
    34915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34916 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34917 subregion, step) 
    34918 File
    34919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34920 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    34921 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    34922 File
    34923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34924 packages/chimerax/map/volume.py", line 1243, in
    34925 matrix_indices_to_xyz_transform 
    34926 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    34927 File
    34928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34929 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    34930 r = self.subregion(step, subregion) 
    34931 File
    34932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34933 packages/chimerax/map/volume.py", line 1558, in subregion 
    34934 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34935 AttributeError: 'NoneType' object has no attribute 'size' 
    34936  
    34937 AttributeError: 'NoneType' object has no attribute 'size' 
    34938  
    34939 File
    34940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34941 packages/chimerax/map/volume.py", line 1558, in subregion 
    34942 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    34943  
    34944 See log for complete Python traceback. 
    34945  
    34946 Traceback (most recent call last): 
    34947 File
    34948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34949 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    34950 drew = self.draw_new_frame() 
    34951 File
    34952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34953 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    34954 surface.update_clip_caps(view) 
    34955 File
    34956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34957 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    34958 subdivision = settings.clipping_cap_subdivision) 
    34959 File
    34960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34961 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    34962 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    34963 File
    34964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34965 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    34966 cm.set_geometry(varray, narray, tarray) 
    34967 File
    34968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34969 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    34970 arv() 
    34971 File
    34972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34973 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    34974 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    34975 File
    34976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34977 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    34978 s.vertex_colors = self.vertex_colors(report_stats) 
    34979 File
    34980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34981 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    34982 values, outside = self.volume_values() 
    34983 File
    34984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34985 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    34986 return self.offset_values(v, n, tf) 
    34987 File
    34988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34989 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    34990 values, outside = self.vertex_values(v, xf) 
    34991 File
    34992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34993 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    34994 out_of_bounds_list = True) 
    34995 File
    34996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    34997 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    34998 subregion, step) 
    34999 File
    35000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35001 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35002 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35003 File
    35004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35005 packages/chimerax/map/volume.py", line 1243, in
    35006 matrix_indices_to_xyz_transform 
    35007 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35008 File
    35009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35010 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35011 r = self.subregion(step, subregion) 
    35012 File
    35013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35014 packages/chimerax/map/volume.py", line 1558, in subregion 
    35015 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35016 AttributeError: 'NoneType' object has no attribute 'size' 
    35017  
    35018 AttributeError: 'NoneType' object has no attribute 'size' 
    35019  
    35020 File
    35021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35022 packages/chimerax/map/volume.py", line 1558, in subregion 
    35023 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35024  
    35025 See log for complete Python traceback. 
    35026  
    35027 Traceback (most recent call last): 
    35028 File
    35029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35030 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35031 drew = self.draw_new_frame() 
    35032 File
    35033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35034 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35035 surface.update_clip_caps(view) 
    35036 File
    35037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35038 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35039 subdivision = settings.clipping_cap_subdivision) 
    35040 File
    35041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35042 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35043 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35044 File
    35045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35046 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35047 cm.set_geometry(varray, narray, tarray) 
    35048 File
    35049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35050 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35051 arv() 
    35052 File
    35053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35054 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35055 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35056 File
    35057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35058 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35059 s.vertex_colors = self.vertex_colors(report_stats) 
    35060 File
    35061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35062 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35063 values, outside = self.volume_values() 
    35064 File
    35065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35066 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35067 return self.offset_values(v, n, tf) 
    35068 File
    35069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35070 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35071 values, outside = self.vertex_values(v, xf) 
    35072 File
    35073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35074 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35075 out_of_bounds_list = True) 
    35076 File
    35077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35078 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35079 subregion, step) 
    35080 File
    35081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35082 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35083 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35084 File
    35085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35086 packages/chimerax/map/volume.py", line 1243, in
    35087 matrix_indices_to_xyz_transform 
    35088 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35089 File
    35090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35091 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35092 r = self.subregion(step, subregion) 
    35093 File
    35094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35095 packages/chimerax/map/volume.py", line 1558, in subregion 
    35096 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35097 AttributeError: 'NoneType' object has no attribute 'size' 
    35098  
    35099 AttributeError: 'NoneType' object has no attribute 'size' 
    35100  
    35101 File
    35102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35103 packages/chimerax/map/volume.py", line 1558, in subregion 
    35104 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35105  
    35106 See log for complete Python traceback. 
    35107  
    35108 Traceback (most recent call last): 
    35109 File
    35110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35111 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35112 drew = self.draw_new_frame() 
    35113 File
    35114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35115 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35116 surface.update_clip_caps(view) 
    35117 File
    35118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35119 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35120 subdivision = settings.clipping_cap_subdivision) 
    35121 File
    35122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35123 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35124 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35125 File
    35126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35127 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35128 cm.set_geometry(varray, narray, tarray) 
    35129 File
    35130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35131 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35132 arv() 
    35133 File
    35134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35135 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35136 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35137 File
    35138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35139 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35140 s.vertex_colors = self.vertex_colors(report_stats) 
    35141 File
    35142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35143 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35144 values, outside = self.volume_values() 
    35145 File
    35146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35147 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35148 return self.offset_values(v, n, tf) 
    35149 File
    35150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35151 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35152 values, outside = self.vertex_values(v, xf) 
    35153 File
    35154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35155 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35156 out_of_bounds_list = True) 
    35157 File
    35158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35159 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35160 subregion, step) 
    35161 File
    35162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35163 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35164 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35165 File
    35166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35167 packages/chimerax/map/volume.py", line 1243, in
    35168 matrix_indices_to_xyz_transform 
    35169 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35170 File
    35171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35172 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35173 r = self.subregion(step, subregion) 
    35174 File
    35175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35176 packages/chimerax/map/volume.py", line 1558, in subregion 
    35177 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35178 AttributeError: 'NoneType' object has no attribute 'size' 
    35179  
    35180 AttributeError: 'NoneType' object has no attribute 'size' 
    35181  
    35182 File
    35183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35184 packages/chimerax/map/volume.py", line 1558, in subregion 
    35185 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35186  
    35187 See log for complete Python traceback. 
    35188  
    35189 Traceback (most recent call last): 
    35190 File
    35191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35192 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35193 drew = self.draw_new_frame() 
    35194 File
    35195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35196 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35197 surface.update_clip_caps(view) 
    35198 File
    35199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35200 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35201 subdivision = settings.clipping_cap_subdivision) 
    35202 File
    35203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35204 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35205 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35206 File
    35207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35208 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35209 cm.set_geometry(varray, narray, tarray) 
    35210 File
    35211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35212 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35213 arv() 
    35214 File
    35215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35216 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35217 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35218 File
    35219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35220 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35221 s.vertex_colors = self.vertex_colors(report_stats) 
    35222 File
    35223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35224 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35225 values, outside = self.volume_values() 
    35226 File
    35227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35228 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35229 return self.offset_values(v, n, tf) 
    35230 File
    35231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35232 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35233 values, outside = self.vertex_values(v, xf) 
    35234 File
    35235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35236 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35237 out_of_bounds_list = True) 
    35238 File
    35239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35240 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35241 subregion, step) 
    35242 File
    35243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35244 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35245 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35246 File
    35247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35248 packages/chimerax/map/volume.py", line 1243, in
    35249 matrix_indices_to_xyz_transform 
    35250 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35251 File
    35252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35253 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35254 r = self.subregion(step, subregion) 
    35255 File
    35256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35257 packages/chimerax/map/volume.py", line 1558, in subregion 
    35258 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35259 AttributeError: 'NoneType' object has no attribute 'size' 
    35260  
    35261 AttributeError: 'NoneType' object has no attribute 'size' 
    35262  
    35263 File
    35264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35265 packages/chimerax/map/volume.py", line 1558, in subregion 
    35266 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35267  
    35268 See log for complete Python traceback. 
    35269  
    35270 Traceback (most recent call last): 
    35271 File
    35272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35273 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35274 drew = self.draw_new_frame() 
    35275 File
    35276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35277 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35278 surface.update_clip_caps(view) 
    35279 File
    35280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35281 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35282 subdivision = settings.clipping_cap_subdivision) 
    35283 File
    35284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35285 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35286 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35287 File
    35288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35289 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35290 cm.set_geometry(varray, narray, tarray) 
    35291 File
    35292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35293 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35294 arv() 
    35295 File
    35296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35297 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35298 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35299 File
    35300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35301 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35302 s.vertex_colors = self.vertex_colors(report_stats) 
    35303 File
    35304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35305 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35306 values, outside = self.volume_values() 
    35307 File
    35308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35309 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35310 return self.offset_values(v, n, tf) 
    35311 File
    35312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35313 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35314 values, outside = self.vertex_values(v, xf) 
    35315 File
    35316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35317 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35318 out_of_bounds_list = True) 
    35319 File
    35320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35321 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35322 subregion, step) 
    35323 File
    35324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35325 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35326 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35327 File
    35328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35329 packages/chimerax/map/volume.py", line 1243, in
    35330 matrix_indices_to_xyz_transform 
    35331 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35332 File
    35333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35334 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35335 r = self.subregion(step, subregion) 
    35336 File
    35337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35338 packages/chimerax/map/volume.py", line 1558, in subregion 
    35339 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35340 AttributeError: 'NoneType' object has no attribute 'size' 
    35341  
    35342 AttributeError: 'NoneType' object has no attribute 'size' 
    35343  
    35344 File
    35345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35346 packages/chimerax/map/volume.py", line 1558, in subregion 
    35347 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35348  
    35349 See log for complete Python traceback. 
    35350  
    35351 Traceback (most recent call last): 
    35352 File
    35353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35354 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35355 drew = self.draw_new_frame() 
    35356 File
    35357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35358 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35359 surface.update_clip_caps(view) 
    35360 File
    35361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35362 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35363 subdivision = settings.clipping_cap_subdivision) 
    35364 File
    35365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35366 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35367 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35368 File
    35369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35370 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35371 cm.set_geometry(varray, narray, tarray) 
    35372 File
    35373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35374 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35375 arv() 
    35376 File
    35377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35378 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35379 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35380 File
    35381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35382 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35383 s.vertex_colors = self.vertex_colors(report_stats) 
    35384 File
    35385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35386 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35387 values, outside = self.volume_values() 
    35388 File
    35389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35390 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35391 return self.offset_values(v, n, tf) 
    35392 File
    35393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35394 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35395 values, outside = self.vertex_values(v, xf) 
    35396 File
    35397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35398 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35399 out_of_bounds_list = True) 
    35400 File
    35401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35402 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35403 subregion, step) 
    35404 File
    35405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35406 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35407 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35408 File
    35409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35410 packages/chimerax/map/volume.py", line 1243, in
    35411 matrix_indices_to_xyz_transform 
    35412 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35413 File
    35414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35415 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35416 r = self.subregion(step, subregion) 
    35417 File
    35418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35419 packages/chimerax/map/volume.py", line 1558, in subregion 
    35420 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35421 AttributeError: 'NoneType' object has no attribute 'size' 
    35422  
    35423 AttributeError: 'NoneType' object has no attribute 'size' 
    35424  
    35425 File
    35426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35427 packages/chimerax/map/volume.py", line 1558, in subregion 
    35428 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35429  
    35430 See log for complete Python traceback. 
    35431  
    35432 Traceback (most recent call last): 
    35433 File
    35434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35435 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35436 drew = self.draw_new_frame() 
    35437 File
    35438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35439 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35440 surface.update_clip_caps(view) 
    35441 File
    35442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35443 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35444 subdivision = settings.clipping_cap_subdivision) 
    35445 File
    35446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35447 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35448 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35449 File
    35450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35451 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35452 cm.set_geometry(varray, narray, tarray) 
    35453 File
    35454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35455 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35456 arv() 
    35457 File
    35458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35459 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35460 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35461 File
    35462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35463 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35464 s.vertex_colors = self.vertex_colors(report_stats) 
    35465 File
    35466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35467 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35468 values, outside = self.volume_values() 
    35469 File
    35470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35471 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35472 return self.offset_values(v, n, tf) 
    35473 File
    35474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35475 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35476 values, outside = self.vertex_values(v, xf) 
    35477 File
    35478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35479 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35480 out_of_bounds_list = True) 
    35481 File
    35482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35483 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35484 subregion, step) 
    35485 File
    35486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35487 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35488 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35489 File
    35490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35491 packages/chimerax/map/volume.py", line 1243, in
    35492 matrix_indices_to_xyz_transform 
    35493 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35494 File
    35495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35496 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35497 r = self.subregion(step, subregion) 
    35498 File
    35499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35500 packages/chimerax/map/volume.py", line 1558, in subregion 
    35501 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35502 AttributeError: 'NoneType' object has no attribute 'size' 
    35503  
    35504 AttributeError: 'NoneType' object has no attribute 'size' 
    35505  
    35506 File
    35507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35508 packages/chimerax/map/volume.py", line 1558, in subregion 
    35509 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35510  
    35511 See log for complete Python traceback. 
    35512  
    35513 Traceback (most recent call last): 
    35514 File
    35515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35516 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35517 drew = self.draw_new_frame() 
    35518 File
    35519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35520 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35521 surface.update_clip_caps(view) 
    35522 File
    35523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35524 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35525 subdivision = settings.clipping_cap_subdivision) 
    35526 File
    35527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35528 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35529 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35530 File
    35531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35532 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35533 cm.set_geometry(varray, narray, tarray) 
    35534 File
    35535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35536 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35537 arv() 
    35538 File
    35539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35540 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35541 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35542 File
    35543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35544 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35545 s.vertex_colors = self.vertex_colors(report_stats) 
    35546 File
    35547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35548 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35549 values, outside = self.volume_values() 
    35550 File
    35551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35552 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35553 return self.offset_values(v, n, tf) 
    35554 File
    35555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35556 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35557 values, outside = self.vertex_values(v, xf) 
    35558 File
    35559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35560 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35561 out_of_bounds_list = True) 
    35562 File
    35563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35564 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35565 subregion, step) 
    35566 File
    35567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35568 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35569 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35570 File
    35571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35572 packages/chimerax/map/volume.py", line 1243, in
    35573 matrix_indices_to_xyz_transform 
    35574 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35575 File
    35576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35577 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35578 r = self.subregion(step, subregion) 
    35579 File
    35580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35581 packages/chimerax/map/volume.py", line 1558, in subregion 
    35582 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35583 AttributeError: 'NoneType' object has no attribute 'size' 
    35584  
    35585 AttributeError: 'NoneType' object has no attribute 'size' 
    35586  
    35587 File
    35588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35589 packages/chimerax/map/volume.py", line 1558, in subregion 
    35590 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35591  
    35592 See log for complete Python traceback. 
    35593  
    35594 Traceback (most recent call last): 
    35595 File
    35596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35597 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35598 drew = self.draw_new_frame() 
    35599 File
    35600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35601 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35602 surface.update_clip_caps(view) 
    35603 File
    35604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35605 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35606 subdivision = settings.clipping_cap_subdivision) 
    35607 File
    35608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35609 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35610 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35611 File
    35612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35613 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35614 cm.set_geometry(varray, narray, tarray) 
    35615 File
    35616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35617 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35618 arv() 
    35619 File
    35620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35621 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35622 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35623 File
    35624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35625 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35626 s.vertex_colors = self.vertex_colors(report_stats) 
    35627 File
    35628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35629 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35630 values, outside = self.volume_values() 
    35631 File
    35632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35633 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35634 return self.offset_values(v, n, tf) 
    35635 File
    35636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35637 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35638 values, outside = self.vertex_values(v, xf) 
    35639 File
    35640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35641 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35642 out_of_bounds_list = True) 
    35643 File
    35644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35645 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35646 subregion, step) 
    35647 File
    35648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35649 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35650 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35651 File
    35652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35653 packages/chimerax/map/volume.py", line 1243, in
    35654 matrix_indices_to_xyz_transform 
    35655 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35656 File
    35657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35658 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35659 r = self.subregion(step, subregion) 
    35660 File
    35661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35662 packages/chimerax/map/volume.py", line 1558, in subregion 
    35663 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35664 AttributeError: 'NoneType' object has no attribute 'size' 
    35665  
    35666 AttributeError: 'NoneType' object has no attribute 'size' 
    35667  
    35668 File
    35669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35670 packages/chimerax/map/volume.py", line 1558, in subregion 
    35671 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35672  
    35673 See log for complete Python traceback. 
    35674  
    35675 Traceback (most recent call last): 
    35676 File
    35677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35678 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35679 drew = self.draw_new_frame() 
    35680 File
    35681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35682 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35683 surface.update_clip_caps(view) 
    35684 File
    35685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35686 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35687 subdivision = settings.clipping_cap_subdivision) 
    35688 File
    35689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35690 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35691 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35692 File
    35693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35694 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35695 cm.set_geometry(varray, narray, tarray) 
    35696 File
    35697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35698 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35699 arv() 
    35700 File
    35701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35702 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35703 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35704 File
    35705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35706 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35707 s.vertex_colors = self.vertex_colors(report_stats) 
    35708 File
    35709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35710 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35711 values, outside = self.volume_values() 
    35712 File
    35713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35714 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35715 return self.offset_values(v, n, tf) 
    35716 File
    35717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35718 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35719 values, outside = self.vertex_values(v, xf) 
    35720 File
    35721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35722 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35723 out_of_bounds_list = True) 
    35724 File
    35725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35726 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35727 subregion, step) 
    35728 File
    35729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35730 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35731 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35732 File
    35733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35734 packages/chimerax/map/volume.py", line 1243, in
    35735 matrix_indices_to_xyz_transform 
    35736 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35737 File
    35738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35739 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35740 r = self.subregion(step, subregion) 
    35741 File
    35742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35743 packages/chimerax/map/volume.py", line 1558, in subregion 
    35744 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35745 AttributeError: 'NoneType' object has no attribute 'size' 
    35746  
    35747 AttributeError: 'NoneType' object has no attribute 'size' 
    35748  
    35749 File
    35750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35751 packages/chimerax/map/volume.py", line 1558, in subregion 
    35752 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35753  
    35754 See log for complete Python traceback. 
    35755  
    35756 Traceback (most recent call last): 
    35757 File
    35758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35759 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35760 drew = self.draw_new_frame() 
    35761 File
    35762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35763 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35764 surface.update_clip_caps(view) 
    35765 File
    35766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35767 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35768 subdivision = settings.clipping_cap_subdivision) 
    35769 File
    35770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35771 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35772 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35773 File
    35774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35775 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35776 cm.set_geometry(varray, narray, tarray) 
    35777 File
    35778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35779 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35780 arv() 
    35781 File
    35782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35783 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35784 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35785 File
    35786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35787 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35788 s.vertex_colors = self.vertex_colors(report_stats) 
    35789 File
    35790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35791 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35792 values, outside = self.volume_values() 
    35793 File
    35794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35795 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35796 return self.offset_values(v, n, tf) 
    35797 File
    35798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35799 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35800 values, outside = self.vertex_values(v, xf) 
    35801 File
    35802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35803 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35804 out_of_bounds_list = True) 
    35805 File
    35806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35807 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35808 subregion, step) 
    35809 File
    35810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35811 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35812 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35813 File
    35814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35815 packages/chimerax/map/volume.py", line 1243, in
    35816 matrix_indices_to_xyz_transform 
    35817 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35818 File
    35819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35820 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35821 r = self.subregion(step, subregion) 
    35822 File
    35823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35824 packages/chimerax/map/volume.py", line 1558, in subregion 
    35825 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35826 AttributeError: 'NoneType' object has no attribute 'size' 
    35827  
    35828 AttributeError: 'NoneType' object has no attribute 'size' 
    35829  
    35830 File
    35831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35832 packages/chimerax/map/volume.py", line 1558, in subregion 
    35833 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35834  
    35835 See log for complete Python traceback. 
    35836  
    35837 Traceback (most recent call last): 
    35838 File
    35839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35840 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35841 drew = self.draw_new_frame() 
    35842 File
    35843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35844 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35845 surface.update_clip_caps(view) 
    35846 File
    35847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35848 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35849 subdivision = settings.clipping_cap_subdivision) 
    35850 File
    35851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35852 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35853 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35854 File
    35855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35856 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35857 cm.set_geometry(varray, narray, tarray) 
    35858 File
    35859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35860 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35861 arv() 
    35862 File
    35863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35864 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35865 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35866 File
    35867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35868 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35869 s.vertex_colors = self.vertex_colors(report_stats) 
    35870 File
    35871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35872 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35873 values, outside = self.volume_values() 
    35874 File
    35875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35876 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35877 return self.offset_values(v, n, tf) 
    35878 File
    35879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35880 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35881 values, outside = self.vertex_values(v, xf) 
    35882 File
    35883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35884 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35885 out_of_bounds_list = True) 
    35886 File
    35887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35888 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35889 subregion, step) 
    35890 File
    35891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35892 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35893 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35894 File
    35895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35896 packages/chimerax/map/volume.py", line 1243, in
    35897 matrix_indices_to_xyz_transform 
    35898 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35899 File
    35900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35901 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35902 r = self.subregion(step, subregion) 
    35903 File
    35904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35905 packages/chimerax/map/volume.py", line 1558, in subregion 
    35906 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35907 AttributeError: 'NoneType' object has no attribute 'size' 
    35908  
    35909 AttributeError: 'NoneType' object has no attribute 'size' 
    35910  
    35911 File
    35912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35913 packages/chimerax/map/volume.py", line 1558, in subregion 
    35914 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35915  
    35916 See log for complete Python traceback. 
    35917  
    35918 Traceback (most recent call last): 
    35919 File
    35920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35921 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    35922 drew = self.draw_new_frame() 
    35923 File
    35924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35925 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    35926 surface.update_clip_caps(view) 
    35927 File
    35928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35929 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    35930 subdivision = settings.clipping_cap_subdivision) 
    35931 File
    35932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35933 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    35934 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    35935 File
    35936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35937 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    35938 cm.set_geometry(varray, narray, tarray) 
    35939 File
    35940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35941 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    35942 arv() 
    35943 File
    35944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35945 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    35946 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    35947 File
    35948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35949 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    35950 s.vertex_colors = self.vertex_colors(report_stats) 
    35951 File
    35952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35953 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    35954 values, outside = self.volume_values() 
    35955 File
    35956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35957 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    35958 return self.offset_values(v, n, tf) 
    35959 File
    35960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35961 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    35962 values, outside = self.vertex_values(v, xf) 
    35963 File
    35964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35965 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    35966 out_of_bounds_list = True) 
    35967 File
    35968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35969 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    35970 subregion, step) 
    35971 File
    35972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35973 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    35974 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    35975 File
    35976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35977 packages/chimerax/map/volume.py", line 1243, in
    35978 matrix_indices_to_xyz_transform 
    35979 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    35980 File
    35981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35982 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    35983 r = self.subregion(step, subregion) 
    35984 File
    35985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35986 packages/chimerax/map/volume.py", line 1558, in subregion 
    35987 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35988 AttributeError: 'NoneType' object has no attribute 'size' 
    35989  
    35990 AttributeError: 'NoneType' object has no attribute 'size' 
    35991  
    35992 File
    35993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    35994 packages/chimerax/map/volume.py", line 1558, in subregion 
    35995 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    35996  
    35997 See log for complete Python traceback. 
    35998  
    35999 Traceback (most recent call last): 
    36000 File
    36001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36002 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36003 drew = self.draw_new_frame() 
    36004 File
    36005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36006 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36007 surface.update_clip_caps(view) 
    36008 File
    36009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36010 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36011 subdivision = settings.clipping_cap_subdivision) 
    36012 File
    36013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36014 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36015 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36016 File
    36017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36018 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36019 cm.set_geometry(varray, narray, tarray) 
    36020 File
    36021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36022 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36023 arv() 
    36024 File
    36025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36026 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36027 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36028 File
    36029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36030 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36031 s.vertex_colors = self.vertex_colors(report_stats) 
    36032 File
    36033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36034 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36035 values, outside = self.volume_values() 
    36036 File
    36037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36038 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36039 return self.offset_values(v, n, tf) 
    36040 File
    36041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36042 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36043 values, outside = self.vertex_values(v, xf) 
    36044 File
    36045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36046 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36047 out_of_bounds_list = True) 
    36048 File
    36049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36050 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36051 subregion, step) 
    36052 File
    36053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36054 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36055 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36056 File
    36057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36058 packages/chimerax/map/volume.py", line 1243, in
    36059 matrix_indices_to_xyz_transform 
    36060 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36061 File
    36062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36063 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36064 r = self.subregion(step, subregion) 
    36065 File
    36066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36067 packages/chimerax/map/volume.py", line 1558, in subregion 
    36068 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36069 AttributeError: 'NoneType' object has no attribute 'size' 
    36070  
    36071 AttributeError: 'NoneType' object has no attribute 'size' 
    36072  
    36073 File
    36074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36075 packages/chimerax/map/volume.py", line 1558, in subregion 
    36076 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36077  
    36078 See log for complete Python traceback. 
    36079  
    36080 Traceback (most recent call last): 
    36081 File
    36082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36083 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36084 drew = self.draw_new_frame() 
    36085 File
    36086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36087 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36088 surface.update_clip_caps(view) 
    36089 File
    36090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36091 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36092 subdivision = settings.clipping_cap_subdivision) 
    36093 File
    36094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36095 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36096 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36097 File
    36098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36099 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36100 cm.set_geometry(varray, narray, tarray) 
    36101 File
    36102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36103 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36104 arv() 
    36105 File
    36106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36107 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36108 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36109 File
    36110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36111 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36112 s.vertex_colors = self.vertex_colors(report_stats) 
    36113 File
    36114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36115 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36116 values, outside = self.volume_values() 
    36117 File
    36118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36119 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36120 return self.offset_values(v, n, tf) 
    36121 File
    36122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36123 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36124 values, outside = self.vertex_values(v, xf) 
    36125 File
    36126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36127 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36128 out_of_bounds_list = True) 
    36129 File
    36130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36131 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36132 subregion, step) 
    36133 File
    36134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36135 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36136 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36137 File
    36138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36139 packages/chimerax/map/volume.py", line 1243, in
    36140 matrix_indices_to_xyz_transform 
    36141 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36142 File
    36143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36144 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36145 r = self.subregion(step, subregion) 
    36146 File
    36147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36148 packages/chimerax/map/volume.py", line 1558, in subregion 
    36149 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36150 AttributeError: 'NoneType' object has no attribute 'size' 
    36151  
    36152 AttributeError: 'NoneType' object has no attribute 'size' 
    36153  
    36154 File
    36155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36156 packages/chimerax/map/volume.py", line 1558, in subregion 
    36157 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36158  
    36159 See log for complete Python traceback. 
    36160  
    36161 Traceback (most recent call last): 
    36162 File
    36163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36164 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36165 drew = self.draw_new_frame() 
    36166 File
    36167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36168 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36169 surface.update_clip_caps(view) 
    36170 File
    36171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36172 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36173 subdivision = settings.clipping_cap_subdivision) 
    36174 File
    36175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36176 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36177 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36178 File
    36179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36180 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36181 cm.set_geometry(varray, narray, tarray) 
    36182 File
    36183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36184 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36185 arv() 
    36186 File
    36187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36188 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36189 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36190 File
    36191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36192 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36193 s.vertex_colors = self.vertex_colors(report_stats) 
    36194 File
    36195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36196 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36197 values, outside = self.volume_values() 
    36198 File
    36199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36200 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36201 return self.offset_values(v, n, tf) 
    36202 File
    36203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36204 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36205 values, outside = self.vertex_values(v, xf) 
    36206 File
    36207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36208 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36209 out_of_bounds_list = True) 
    36210 File
    36211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36212 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36213 subregion, step) 
    36214 File
    36215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36216 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36217 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36218 File
    36219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36220 packages/chimerax/map/volume.py", line 1243, in
    36221 matrix_indices_to_xyz_transform 
    36222 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36223 File
    36224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36225 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36226 r = self.subregion(step, subregion) 
    36227 File
    36228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36229 packages/chimerax/map/volume.py", line 1558, in subregion 
    36230 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36231 AttributeError: 'NoneType' object has no attribute 'size' 
    36232  
    36233 AttributeError: 'NoneType' object has no attribute 'size' 
    36234  
    36235 File
    36236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36237 packages/chimerax/map/volume.py", line 1558, in subregion 
    36238 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36239  
    36240 See log for complete Python traceback. 
    36241  
    36242 Traceback (most recent call last): 
    36243 File
    36244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36245 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36246 drew = self.draw_new_frame() 
    36247 File
    36248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36249 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36250 surface.update_clip_caps(view) 
    36251 File
    36252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36253 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36254 subdivision = settings.clipping_cap_subdivision) 
    36255 File
    36256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36257 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36258 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36259 File
    36260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36261 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36262 cm.set_geometry(varray, narray, tarray) 
    36263 File
    36264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36265 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36266 arv() 
    36267 File
    36268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36269 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36270 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36271 File
    36272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36273 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36274 s.vertex_colors = self.vertex_colors(report_stats) 
    36275 File
    36276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36277 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36278 values, outside = self.volume_values() 
    36279 File
    36280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36281 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36282 return self.offset_values(v, n, tf) 
    36283 File
    36284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36285 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36286 values, outside = self.vertex_values(v, xf) 
    36287 File
    36288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36289 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36290 out_of_bounds_list = True) 
    36291 File
    36292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36293 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36294 subregion, step) 
    36295 File
    36296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36297 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36298 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36299 File
    36300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36301 packages/chimerax/map/volume.py", line 1243, in
    36302 matrix_indices_to_xyz_transform 
    36303 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36304 File
    36305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36306 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36307 r = self.subregion(step, subregion) 
    36308 File
    36309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36310 packages/chimerax/map/volume.py", line 1558, in subregion 
    36311 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36312 AttributeError: 'NoneType' object has no attribute 'size' 
    36313  
    36314 AttributeError: 'NoneType' object has no attribute 'size' 
    36315  
    36316 File
    36317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36318 packages/chimerax/map/volume.py", line 1558, in subregion 
    36319 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36320  
    36321 See log for complete Python traceback. 
    36322  
    36323 Traceback (most recent call last): 
    36324 File
    36325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36326 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36327 drew = self.draw_new_frame() 
    36328 File
    36329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36330 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36331 surface.update_clip_caps(view) 
    36332 File
    36333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36334 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36335 subdivision = settings.clipping_cap_subdivision) 
    36336 File
    36337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36338 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36339 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36340 File
    36341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36342 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36343 cm.set_geometry(varray, narray, tarray) 
    36344 File
    36345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36346 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36347 arv() 
    36348 File
    36349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36350 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36351 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36352 File
    36353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36354 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36355 s.vertex_colors = self.vertex_colors(report_stats) 
    36356 File
    36357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36358 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36359 values, outside = self.volume_values() 
    36360 File
    36361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36362 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36363 return self.offset_values(v, n, tf) 
    36364 File
    36365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36366 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36367 values, outside = self.vertex_values(v, xf) 
    36368 File
    36369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36370 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36371 out_of_bounds_list = True) 
    36372 File
    36373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36374 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36375 subregion, step) 
    36376 File
    36377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36378 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36379 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36380 File
    36381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36382 packages/chimerax/map/volume.py", line 1243, in
    36383 matrix_indices_to_xyz_transform 
    36384 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36385 File
    36386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36387 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36388 r = self.subregion(step, subregion) 
    36389 File
    36390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36391 packages/chimerax/map/volume.py", line 1558, in subregion 
    36392 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36393 AttributeError: 'NoneType' object has no attribute 'size' 
    36394  
    36395 AttributeError: 'NoneType' object has no attribute 'size' 
    36396  
    36397 File
    36398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36399 packages/chimerax/map/volume.py", line 1558, in subregion 
    36400 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36401  
    36402 See log for complete Python traceback. 
    36403  
    36404 Traceback (most recent call last): 
    36405 File
    36406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36407 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36408 drew = self.draw_new_frame() 
    36409 File
    36410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36411 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36412 surface.update_clip_caps(view) 
    36413 File
    36414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36415 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36416 subdivision = settings.clipping_cap_subdivision) 
    36417 File
    36418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36419 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36420 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36421 File
    36422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36423 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36424 cm.set_geometry(varray, narray, tarray) 
    36425 File
    36426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36427 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36428 arv() 
    36429 File
    36430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36431 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36432 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36433 File
    36434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36435 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36436 s.vertex_colors = self.vertex_colors(report_stats) 
    36437 File
    36438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36439 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36440 values, outside = self.volume_values() 
    36441 File
    36442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36443 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36444 return self.offset_values(v, n, tf) 
    36445 File
    36446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36447 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36448 values, outside = self.vertex_values(v, xf) 
    36449 File
    36450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36451 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36452 out_of_bounds_list = True) 
    36453 File
    36454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36455 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36456 subregion, step) 
    36457 File
    36458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36459 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36460 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36461 File
    36462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36463 packages/chimerax/map/volume.py", line 1243, in
    36464 matrix_indices_to_xyz_transform 
    36465 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36466 File
    36467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36468 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36469 r = self.subregion(step, subregion) 
    36470 File
    36471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36472 packages/chimerax/map/volume.py", line 1558, in subregion 
    36473 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36474 AttributeError: 'NoneType' object has no attribute 'size' 
    36475  
    36476 AttributeError: 'NoneType' object has no attribute 'size' 
    36477  
    36478 File
    36479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36480 packages/chimerax/map/volume.py", line 1558, in subregion 
    36481 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36482  
    36483 See log for complete Python traceback. 
    36484  
    36485 Traceback (most recent call last): 
    36486 File
    36487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36488 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36489 drew = self.draw_new_frame() 
    36490 File
    36491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36492 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36493 surface.update_clip_caps(view) 
    36494 File
    36495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36496 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36497 subdivision = settings.clipping_cap_subdivision) 
    36498 File
    36499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36500 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36501 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36502 File
    36503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36504 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36505 cm.set_geometry(varray, narray, tarray) 
    36506 File
    36507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36508 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36509 arv() 
    36510 File
    36511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36512 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36513 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36514 File
    36515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36516 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36517 s.vertex_colors = self.vertex_colors(report_stats) 
    36518 File
    36519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36520 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36521 values, outside = self.volume_values() 
    36522 File
    36523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36524 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36525 return self.offset_values(v, n, tf) 
    36526 File
    36527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36528 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36529 values, outside = self.vertex_values(v, xf) 
    36530 File
    36531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36532 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36533 out_of_bounds_list = True) 
    36534 File
    36535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36536 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36537 subregion, step) 
    36538 File
    36539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36540 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36541 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36542 File
    36543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36544 packages/chimerax/map/volume.py", line 1243, in
    36545 matrix_indices_to_xyz_transform 
    36546 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36547 File
    36548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36549 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36550 r = self.subregion(step, subregion) 
    36551 File
    36552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36553 packages/chimerax/map/volume.py", line 1558, in subregion 
    36554 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36555 AttributeError: 'NoneType' object has no attribute 'size' 
    36556  
    36557 AttributeError: 'NoneType' object has no attribute 'size' 
    36558  
    36559 File
    36560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36561 packages/chimerax/map/volume.py", line 1558, in subregion 
    36562 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36563  
    36564 See log for complete Python traceback. 
    36565  
    36566 Traceback (most recent call last): 
    36567 File
    36568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36569 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36570 drew = self.draw_new_frame() 
    36571 File
    36572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36573 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36574 surface.update_clip_caps(view) 
    36575 File
    36576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36577 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36578 subdivision = settings.clipping_cap_subdivision) 
    36579 File
    36580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36581 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36582 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36583 File
    36584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36585 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36586 cm.set_geometry(varray, narray, tarray) 
    36587 File
    36588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36589 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36590 arv() 
    36591 File
    36592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36593 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36594 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36595 File
    36596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36597 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36598 s.vertex_colors = self.vertex_colors(report_stats) 
    36599 File
    36600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36601 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36602 values, outside = self.volume_values() 
    36603 File
    36604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36605 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36606 return self.offset_values(v, n, tf) 
    36607 File
    36608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36609 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36610 values, outside = self.vertex_values(v, xf) 
    36611 File
    36612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36613 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36614 out_of_bounds_list = True) 
    36615 File
    36616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36617 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36618 subregion, step) 
    36619 File
    36620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36621 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36622 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36623 File
    36624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36625 packages/chimerax/map/volume.py", line 1243, in
    36626 matrix_indices_to_xyz_transform 
    36627 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36628 File
    36629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36630 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36631 r = self.subregion(step, subregion) 
    36632 File
    36633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36634 packages/chimerax/map/volume.py", line 1558, in subregion 
    36635 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36636 AttributeError: 'NoneType' object has no attribute 'size' 
    36637  
    36638 AttributeError: 'NoneType' object has no attribute 'size' 
    36639  
    36640 File
    36641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36642 packages/chimerax/map/volume.py", line 1558, in subregion 
    36643 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36644  
    36645 See log for complete Python traceback. 
    36646  
    36647 Traceback (most recent call last): 
    36648 File
    36649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36650 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36651 drew = self.draw_new_frame() 
    36652 File
    36653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36654 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36655 surface.update_clip_caps(view) 
    36656 File
    36657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36658 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36659 subdivision = settings.clipping_cap_subdivision) 
    36660 File
    36661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36662 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36663 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36664 File
    36665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36666 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36667 cm.set_geometry(varray, narray, tarray) 
    36668 File
    36669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36670 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36671 arv() 
    36672 File
    36673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36674 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36675 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36676 File
    36677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36678 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36679 s.vertex_colors = self.vertex_colors(report_stats) 
    36680 File
    36681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36682 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36683 values, outside = self.volume_values() 
    36684 File
    36685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36686 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36687 return self.offset_values(v, n, tf) 
    36688 File
    36689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36690 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36691 values, outside = self.vertex_values(v, xf) 
    36692 File
    36693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36694 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36695 out_of_bounds_list = True) 
    36696 File
    36697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36698 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36699 subregion, step) 
    36700 File
    36701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36702 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36703 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36704 File
    36705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36706 packages/chimerax/map/volume.py", line 1243, in
    36707 matrix_indices_to_xyz_transform 
    36708 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36709 File
    36710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36711 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36712 r = self.subregion(step, subregion) 
    36713 File
    36714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36715 packages/chimerax/map/volume.py", line 1558, in subregion 
    36716 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36717 AttributeError: 'NoneType' object has no attribute 'size' 
    36718  
    36719 AttributeError: 'NoneType' object has no attribute 'size' 
    36720  
    36721 File
    36722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36723 packages/chimerax/map/volume.py", line 1558, in subregion 
    36724 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36725  
    36726 See log for complete Python traceback. 
    36727  
    36728 Traceback (most recent call last): 
    36729 File
    36730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36731 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36732 drew = self.draw_new_frame() 
    36733 File
    36734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36735 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36736 surface.update_clip_caps(view) 
    36737 File
    36738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36739 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36740 subdivision = settings.clipping_cap_subdivision) 
    36741 File
    36742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36743 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36744 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36745 File
    36746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36747 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36748 cm.set_geometry(varray, narray, tarray) 
    36749 File
    36750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36751 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36752 arv() 
    36753 File
    36754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36755 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36756 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36757 File
    36758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36759 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36760 s.vertex_colors = self.vertex_colors(report_stats) 
    36761 File
    36762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36763 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36764 values, outside = self.volume_values() 
    36765 File
    36766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36767 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36768 return self.offset_values(v, n, tf) 
    36769 File
    36770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36771 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36772 values, outside = self.vertex_values(v, xf) 
    36773 File
    36774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36775 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36776 out_of_bounds_list = True) 
    36777 File
    36778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36779 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36780 subregion, step) 
    36781 File
    36782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36783 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36784 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36785 File
    36786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36787 packages/chimerax/map/volume.py", line 1243, in
    36788 matrix_indices_to_xyz_transform 
    36789 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36790 File
    36791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36792 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36793 r = self.subregion(step, subregion) 
    36794 File
    36795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36796 packages/chimerax/map/volume.py", line 1558, in subregion 
    36797 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36798 AttributeError: 'NoneType' object has no attribute 'size' 
    36799  
    36800 AttributeError: 'NoneType' object has no attribute 'size' 
    36801  
    36802 File
    36803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36804 packages/chimerax/map/volume.py", line 1558, in subregion 
    36805 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36806  
    36807 See log for complete Python traceback. 
    36808  
    36809 Traceback (most recent call last): 
    36810 File
    36811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36812 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36813 drew = self.draw_new_frame() 
    36814 File
    36815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36816 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36817 surface.update_clip_caps(view) 
    36818 File
    36819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36820 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36821 subdivision = settings.clipping_cap_subdivision) 
    36822 File
    36823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36824 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36825 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36826 File
    36827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36828 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36829 cm.set_geometry(varray, narray, tarray) 
    36830 File
    36831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36832 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36833 arv() 
    36834 File
    36835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36836 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36837 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36838 File
    36839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36840 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36841 s.vertex_colors = self.vertex_colors(report_stats) 
    36842 File
    36843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36844 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36845 values, outside = self.volume_values() 
    36846 File
    36847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36848 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36849 return self.offset_values(v, n, tf) 
    36850 File
    36851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36852 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36853 values, outside = self.vertex_values(v, xf) 
    36854 File
    36855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36856 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36857 out_of_bounds_list = True) 
    36858 File
    36859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36860 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36861 subregion, step) 
    36862 File
    36863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36864 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36865 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36866 File
    36867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36868 packages/chimerax/map/volume.py", line 1243, in
    36869 matrix_indices_to_xyz_transform 
    36870 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36871 File
    36872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36873 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36874 r = self.subregion(step, subregion) 
    36875 File
    36876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36877 packages/chimerax/map/volume.py", line 1558, in subregion 
    36878 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36879 AttributeError: 'NoneType' object has no attribute 'size' 
    36880  
    36881 AttributeError: 'NoneType' object has no attribute 'size' 
    36882  
    36883 File
    36884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36885 packages/chimerax/map/volume.py", line 1558, in subregion 
    36886 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36887  
    36888 See log for complete Python traceback. 
    36889  
    36890 Traceback (most recent call last): 
    36891 File
    36892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36893 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36894 drew = self.draw_new_frame() 
    36895 File
    36896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36897 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36898 surface.update_clip_caps(view) 
    36899 File
    36900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36901 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36902 subdivision = settings.clipping_cap_subdivision) 
    36903 File
    36904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36905 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36906 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36907 File
    36908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36909 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36910 cm.set_geometry(varray, narray, tarray) 
    36911 File
    36912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36913 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36914 arv() 
    36915 File
    36916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36917 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36918 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    36919 File
    36920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36921 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    36922 s.vertex_colors = self.vertex_colors(report_stats) 
    36923 File
    36924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36925 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    36926 values, outside = self.volume_values() 
    36927 File
    36928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36929 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    36930 return self.offset_values(v, n, tf) 
    36931 File
    36932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36933 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    36934 values, outside = self.vertex_values(v, xf) 
    36935 File
    36936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36937 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    36938 out_of_bounds_list = True) 
    36939 File
    36940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36941 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    36942 subregion, step) 
    36943 File
    36944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36945 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    36946 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    36947 File
    36948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36949 packages/chimerax/map/volume.py", line 1243, in
    36950 matrix_indices_to_xyz_transform 
    36951 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    36952 File
    36953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36954 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    36955 r = self.subregion(step, subregion) 
    36956 File
    36957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36958 packages/chimerax/map/volume.py", line 1558, in subregion 
    36959 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36960 AttributeError: 'NoneType' object has no attribute 'size' 
    36961  
    36962 AttributeError: 'NoneType' object has no attribute 'size' 
    36963  
    36964 File
    36965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36966 packages/chimerax/map/volume.py", line 1558, in subregion 
    36967 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    36968  
    36969 See log for complete Python traceback. 
    36970  
    36971 Traceback (most recent call last): 
    36972 File
    36973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36974 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    36975 drew = self.draw_new_frame() 
    36976 File
    36977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36978 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    36979 surface.update_clip_caps(view) 
    36980 File
    36981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36982 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    36983 subdivision = settings.clipping_cap_subdivision) 
    36984 File
    36985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36986 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    36987 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    36988 File
    36989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36990 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    36991 cm.set_geometry(varray, narray, tarray) 
    36992 File
    36993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36994 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    36995 arv() 
    36996 File
    36997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    36998 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    36999 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37000 File
    37001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37002 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37003 s.vertex_colors = self.vertex_colors(report_stats) 
    37004 File
    37005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37006 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37007 values, outside = self.volume_values() 
    37008 File
    37009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37010 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37011 return self.offset_values(v, n, tf) 
    37012 File
    37013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37014 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37015 values, outside = self.vertex_values(v, xf) 
    37016 File
    37017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37018 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37019 out_of_bounds_list = True) 
    37020 File
    37021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37022 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37023 subregion, step) 
    37024 File
    37025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37026 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37027 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37028 File
    37029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37030 packages/chimerax/map/volume.py", line 1243, in
    37031 matrix_indices_to_xyz_transform 
    37032 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37033 File
    37034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37035 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37036 r = self.subregion(step, subregion) 
    37037 File
    37038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37039 packages/chimerax/map/volume.py", line 1558, in subregion 
    37040 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37041 AttributeError: 'NoneType' object has no attribute 'size' 
    37042  
    37043 AttributeError: 'NoneType' object has no attribute 'size' 
    37044  
    37045 File
    37046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37047 packages/chimerax/map/volume.py", line 1558, in subregion 
    37048 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37049  
    37050 See log for complete Python traceback. 
    37051  
    37052 Traceback (most recent call last): 
    37053 File
    37054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37055 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37056 drew = self.draw_new_frame() 
    37057 File
    37058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37059 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37060 surface.update_clip_caps(view) 
    37061 File
    37062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37063 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37064 subdivision = settings.clipping_cap_subdivision) 
    37065 File
    37066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37067 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37068 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37069 File
    37070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37071 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37072 cm.set_geometry(varray, narray, tarray) 
    37073 File
    37074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37075 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37076 arv() 
    37077 File
    37078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37079 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37080 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37081 File
    37082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37083 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37084 s.vertex_colors = self.vertex_colors(report_stats) 
    37085 File
    37086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37087 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37088 values, outside = self.volume_values() 
    37089 File
    37090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37091 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37092 return self.offset_values(v, n, tf) 
    37093 File
    37094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37095 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37096 values, outside = self.vertex_values(v, xf) 
    37097 File
    37098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37099 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37100 out_of_bounds_list = True) 
    37101 File
    37102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37103 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37104 subregion, step) 
    37105 File
    37106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37107 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37108 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37109 File
    37110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37111 packages/chimerax/map/volume.py", line 1243, in
    37112 matrix_indices_to_xyz_transform 
    37113 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37114 File
    37115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37116 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37117 r = self.subregion(step, subregion) 
    37118 File
    37119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37120 packages/chimerax/map/volume.py", line 1558, in subregion 
    37121 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37122 AttributeError: 'NoneType' object has no attribute 'size' 
    37123  
    37124 AttributeError: 'NoneType' object has no attribute 'size' 
    37125  
    37126 File
    37127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37128 packages/chimerax/map/volume.py", line 1558, in subregion 
    37129 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37130  
    37131 See log for complete Python traceback. 
    37132  
    37133 Traceback (most recent call last): 
    37134 File
    37135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37136 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37137 drew = self.draw_new_frame() 
    37138 File
    37139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37140 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37141 surface.update_clip_caps(view) 
    37142 File
    37143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37144 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37145 subdivision = settings.clipping_cap_subdivision) 
    37146 File
    37147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37148 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37149 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37150 File
    37151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37152 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37153 cm.set_geometry(varray, narray, tarray) 
    37154 File
    37155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37156 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37157 arv() 
    37158 File
    37159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37160 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37161 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37162 File
    37163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37164 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37165 s.vertex_colors = self.vertex_colors(report_stats) 
    37166 File
    37167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37168 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37169 values, outside = self.volume_values() 
    37170 File
    37171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37172 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37173 return self.offset_values(v, n, tf) 
    37174 File
    37175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37176 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37177 values, outside = self.vertex_values(v, xf) 
    37178 File
    37179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37180 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37181 out_of_bounds_list = True) 
    37182 File
    37183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37184 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37185 subregion, step) 
    37186 File
    37187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37188 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37189 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37190 File
    37191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37192 packages/chimerax/map/volume.py", line 1243, in
    37193 matrix_indices_to_xyz_transform 
    37194 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37195 File
    37196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37197 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37198 r = self.subregion(step, subregion) 
    37199 File
    37200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37201 packages/chimerax/map/volume.py", line 1558, in subregion 
    37202 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37203 AttributeError: 'NoneType' object has no attribute 'size' 
    37204  
    37205 AttributeError: 'NoneType' object has no attribute 'size' 
    37206  
    37207 File
    37208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37209 packages/chimerax/map/volume.py", line 1558, in subregion 
    37210 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37211  
    37212 See log for complete Python traceback. 
    37213  
    37214 Traceback (most recent call last): 
    37215 File
    37216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37217 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37218 drew = self.draw_new_frame() 
    37219 File
    37220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37221 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37222 surface.update_clip_caps(view) 
    37223 File
    37224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37225 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37226 subdivision = settings.clipping_cap_subdivision) 
    37227 File
    37228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37229 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37230 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37231 File
    37232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37233 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37234 cm.set_geometry(varray, narray, tarray) 
    37235 File
    37236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37237 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37238 arv() 
    37239 File
    37240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37241 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37242 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37243 File
    37244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37245 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37246 s.vertex_colors = self.vertex_colors(report_stats) 
    37247 File
    37248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37249 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37250 values, outside = self.volume_values() 
    37251 File
    37252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37253 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37254 return self.offset_values(v, n, tf) 
    37255 File
    37256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37257 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37258 values, outside = self.vertex_values(v, xf) 
    37259 File
    37260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37261 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37262 out_of_bounds_list = True) 
    37263 File
    37264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37265 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37266 subregion, step) 
    37267 File
    37268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37269 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37270 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37271 File
    37272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37273 packages/chimerax/map/volume.py", line 1243, in
    37274 matrix_indices_to_xyz_transform 
    37275 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37276 File
    37277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37278 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37279 r = self.subregion(step, subregion) 
    37280 File
    37281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37282 packages/chimerax/map/volume.py", line 1558, in subregion 
    37283 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37284 AttributeError: 'NoneType' object has no attribute 'size' 
    37285  
    37286 AttributeError: 'NoneType' object has no attribute 'size' 
    37287  
    37288 File
    37289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37290 packages/chimerax/map/volume.py", line 1558, in subregion 
    37291 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37292  
    37293 See log for complete Python traceback. 
    37294  
    37295 Traceback (most recent call last): 
    37296 File
    37297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37298 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37299 drew = self.draw_new_frame() 
    37300 File
    37301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37302 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37303 surface.update_clip_caps(view) 
    37304 File
    37305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37306 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37307 subdivision = settings.clipping_cap_subdivision) 
    37308 File
    37309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37310 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37311 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37312 File
    37313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37314 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37315 cm.set_geometry(varray, narray, tarray) 
    37316 File
    37317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37318 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37319 arv() 
    37320 File
    37321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37322 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37323 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37324 File
    37325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37326 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37327 s.vertex_colors = self.vertex_colors(report_stats) 
    37328 File
    37329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37330 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37331 values, outside = self.volume_values() 
    37332 File
    37333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37334 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37335 return self.offset_values(v, n, tf) 
    37336 File
    37337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37338 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37339 values, outside = self.vertex_values(v, xf) 
    37340 File
    37341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37342 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37343 out_of_bounds_list = True) 
    37344 File
    37345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37346 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37347 subregion, step) 
    37348 File
    37349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37350 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37351 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37352 File
    37353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37354 packages/chimerax/map/volume.py", line 1243, in
    37355 matrix_indices_to_xyz_transform 
    37356 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37357 File
    37358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37359 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37360 r = self.subregion(step, subregion) 
    37361 File
    37362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37363 packages/chimerax/map/volume.py", line 1558, in subregion 
    37364 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37365 AttributeError: 'NoneType' object has no attribute 'size' 
    37366  
    37367 AttributeError: 'NoneType' object has no attribute 'size' 
    37368  
    37369 File
    37370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37371 packages/chimerax/map/volume.py", line 1558, in subregion 
    37372 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37373  
    37374 See log for complete Python traceback. 
    37375  
    37376 Traceback (most recent call last): 
    37377 File
    37378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37379 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37380 drew = self.draw_new_frame() 
    37381 File
    37382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37383 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37384 surface.update_clip_caps(view) 
    37385 File
    37386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37387 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37388 subdivision = settings.clipping_cap_subdivision) 
    37389 File
    37390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37391 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37392 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37393 File
    37394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37395 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37396 cm.set_geometry(varray, narray, tarray) 
    37397 File
    37398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37399 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37400 arv() 
    37401 File
    37402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37403 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37404 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37405 File
    37406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37407 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37408 s.vertex_colors = self.vertex_colors(report_stats) 
    37409 File
    37410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37411 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37412 values, outside = self.volume_values() 
    37413 File
    37414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37415 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37416 return self.offset_values(v, n, tf) 
    37417 File
    37418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37419 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37420 values, outside = self.vertex_values(v, xf) 
    37421 File
    37422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37423 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37424 out_of_bounds_list = True) 
    37425 File
    37426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37427 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37428 subregion, step) 
    37429 File
    37430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37431 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37432 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37433 File
    37434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37435 packages/chimerax/map/volume.py", line 1243, in
    37436 matrix_indices_to_xyz_transform 
    37437 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37438 File
    37439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37440 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37441 r = self.subregion(step, subregion) 
    37442 File
    37443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37444 packages/chimerax/map/volume.py", line 1558, in subregion 
    37445 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37446 AttributeError: 'NoneType' object has no attribute 'size' 
    37447  
    37448 AttributeError: 'NoneType' object has no attribute 'size' 
    37449  
    37450 File
    37451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37452 packages/chimerax/map/volume.py", line 1558, in subregion 
    37453 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37454  
    37455 See log for complete Python traceback. 
    37456  
    37457 Traceback (most recent call last): 
    37458 File
    37459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37460 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37461 drew = self.draw_new_frame() 
    37462 File
    37463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37464 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37465 surface.update_clip_caps(view) 
    37466 File
    37467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37468 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37469 subdivision = settings.clipping_cap_subdivision) 
    37470 File
    37471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37472 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37473 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37474 File
    37475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37476 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37477 cm.set_geometry(varray, narray, tarray) 
    37478 File
    37479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37480 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37481 arv() 
    37482 File
    37483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37484 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37485 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37486 File
    37487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37488 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37489 s.vertex_colors = self.vertex_colors(report_stats) 
    37490 File
    37491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37492 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37493 values, outside = self.volume_values() 
    37494 File
    37495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37496 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37497 return self.offset_values(v, n, tf) 
    37498 File
    37499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37500 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37501 values, outside = self.vertex_values(v, xf) 
    37502 File
    37503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37504 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37505 out_of_bounds_list = True) 
    37506 File
    37507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37508 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37509 subregion, step) 
    37510 File
    37511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37512 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37513 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37514 File
    37515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37516 packages/chimerax/map/volume.py", line 1243, in
    37517 matrix_indices_to_xyz_transform 
    37518 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37519 File
    37520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37521 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37522 r = self.subregion(step, subregion) 
    37523 File
    37524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37525 packages/chimerax/map/volume.py", line 1558, in subregion 
    37526 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37527 AttributeError: 'NoneType' object has no attribute 'size' 
    37528  
    37529 AttributeError: 'NoneType' object has no attribute 'size' 
    37530  
    37531 File
    37532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37533 packages/chimerax/map/volume.py", line 1558, in subregion 
    37534 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37535  
    37536 See log for complete Python traceback. 
    37537  
    37538 Traceback (most recent call last): 
    37539 File
    37540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37541 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37542 drew = self.draw_new_frame() 
    37543 File
    37544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37545 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37546 surface.update_clip_caps(view) 
    37547 File
    37548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37549 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37550 subdivision = settings.clipping_cap_subdivision) 
    37551 File
    37552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37553 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37554 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37555 File
    37556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37557 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37558 cm.set_geometry(varray, narray, tarray) 
    37559 File
    37560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37561 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37562 arv() 
    37563 File
    37564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37565 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37566 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37567 File
    37568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37569 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37570 s.vertex_colors = self.vertex_colors(report_stats) 
    37571 File
    37572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37573 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37574 values, outside = self.volume_values() 
    37575 File
    37576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37577 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37578 return self.offset_values(v, n, tf) 
    37579 File
    37580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37581 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37582 values, outside = self.vertex_values(v, xf) 
    37583 File
    37584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37585 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37586 out_of_bounds_list = True) 
    37587 File
    37588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37589 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37590 subregion, step) 
    37591 File
    37592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37593 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37594 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37595 File
    37596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37597 packages/chimerax/map/volume.py", line 1243, in
    37598 matrix_indices_to_xyz_transform 
    37599 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37600 File
    37601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37602 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37603 r = self.subregion(step, subregion) 
    37604 File
    37605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37606 packages/chimerax/map/volume.py", line 1558, in subregion 
    37607 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37608 AttributeError: 'NoneType' object has no attribute 'size' 
    37609  
    37610 AttributeError: 'NoneType' object has no attribute 'size' 
    37611  
    37612 File
    37613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37614 packages/chimerax/map/volume.py", line 1558, in subregion 
    37615 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37616  
    37617 See log for complete Python traceback. 
    37618  
    37619 Traceback (most recent call last): 
    37620 File
    37621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37622 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37623 drew = self.draw_new_frame() 
    37624 File
    37625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37626 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37627 surface.update_clip_caps(view) 
    37628 File
    37629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37630 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37631 subdivision = settings.clipping_cap_subdivision) 
    37632 File
    37633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37634 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37635 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37636 File
    37637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37638 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37639 cm.set_geometry(varray, narray, tarray) 
    37640 File
    37641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37642 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37643 arv() 
    37644 File
    37645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37646 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37647 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37648 File
    37649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37650 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37651 s.vertex_colors = self.vertex_colors(report_stats) 
    37652 File
    37653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37654 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37655 values, outside = self.volume_values() 
    37656 File
    37657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37658 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37659 return self.offset_values(v, n, tf) 
    37660 File
    37661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37662 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37663 values, outside = self.vertex_values(v, xf) 
    37664 File
    37665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37666 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37667 out_of_bounds_list = True) 
    37668 File
    37669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37670 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37671 subregion, step) 
    37672 File
    37673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37674 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37675 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37676 File
    37677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37678 packages/chimerax/map/volume.py", line 1243, in
    37679 matrix_indices_to_xyz_transform 
    37680 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37681 File
    37682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37683 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37684 r = self.subregion(step, subregion) 
    37685 File
    37686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37687 packages/chimerax/map/volume.py", line 1558, in subregion 
    37688 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37689 AttributeError: 'NoneType' object has no attribute 'size' 
    37690  
    37691 AttributeError: 'NoneType' object has no attribute 'size' 
    37692  
    37693 File
    37694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37695 packages/chimerax/map/volume.py", line 1558, in subregion 
    37696 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37697  
    37698 See log for complete Python traceback. 
    37699  
    37700 Traceback (most recent call last): 
    37701 File
    37702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37703 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37704 drew = self.draw_new_frame() 
    37705 File
    37706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37707 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37708 surface.update_clip_caps(view) 
    37709 File
    37710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37711 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37712 subdivision = settings.clipping_cap_subdivision) 
    37713 File
    37714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37715 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37716 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37717 File
    37718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37719 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37720 cm.set_geometry(varray, narray, tarray) 
    37721 File
    37722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37723 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37724 arv() 
    37725 File
    37726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37727 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37728 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37729 File
    37730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37731 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37732 s.vertex_colors = self.vertex_colors(report_stats) 
    37733 File
    37734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37735 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37736 values, outside = self.volume_values() 
    37737 File
    37738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37739 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37740 return self.offset_values(v, n, tf) 
    37741 File
    37742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37743 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37744 values, outside = self.vertex_values(v, xf) 
    37745 File
    37746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37747 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37748 out_of_bounds_list = True) 
    37749 File
    37750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37751 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37752 subregion, step) 
    37753 File
    37754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37755 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37756 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37757 File
    37758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37759 packages/chimerax/map/volume.py", line 1243, in
    37760 matrix_indices_to_xyz_transform 
    37761 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37762 File
    37763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37764 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37765 r = self.subregion(step, subregion) 
    37766 File
    37767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37768 packages/chimerax/map/volume.py", line 1558, in subregion 
    37769 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37770 AttributeError: 'NoneType' object has no attribute 'size' 
    37771  
    37772 AttributeError: 'NoneType' object has no attribute 'size' 
    37773  
    37774 File
    37775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37776 packages/chimerax/map/volume.py", line 1558, in subregion 
    37777 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37778  
    37779 See log for complete Python traceback. 
    37780  
    37781 Traceback (most recent call last): 
    37782 File
    37783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37784 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37785 drew = self.draw_new_frame() 
    37786 File
    37787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37788 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37789 surface.update_clip_caps(view) 
    37790 File
    37791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37792 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37793 subdivision = settings.clipping_cap_subdivision) 
    37794 File
    37795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37796 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37797 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37798 File
    37799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37800 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37801 cm.set_geometry(varray, narray, tarray) 
    37802 File
    37803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37804 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37805 arv() 
    37806 File
    37807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37808 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37809 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37810 File
    37811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37812 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37813 s.vertex_colors = self.vertex_colors(report_stats) 
    37814 File
    37815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37816 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37817 values, outside = self.volume_values() 
    37818 File
    37819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37820 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37821 return self.offset_values(v, n, tf) 
    37822 File
    37823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37824 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37825 values, outside = self.vertex_values(v, xf) 
    37826 File
    37827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37828 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37829 out_of_bounds_list = True) 
    37830 File
    37831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37832 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37833 subregion, step) 
    37834 File
    37835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37836 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37837 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37838 File
    37839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37840 packages/chimerax/map/volume.py", line 1243, in
    37841 matrix_indices_to_xyz_transform 
    37842 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37843 File
    37844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37845 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37846 r = self.subregion(step, subregion) 
    37847 File
    37848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37849 packages/chimerax/map/volume.py", line 1558, in subregion 
    37850 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37851 AttributeError: 'NoneType' object has no attribute 'size' 
    37852  
    37853 AttributeError: 'NoneType' object has no attribute 'size' 
    37854  
    37855 File
    37856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37857 packages/chimerax/map/volume.py", line 1558, in subregion 
    37858 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37859  
    37860 See log for complete Python traceback. 
    37861  
    37862 Traceback (most recent call last): 
    37863 File
    37864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37865 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37866 drew = self.draw_new_frame() 
    37867 File
    37868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37869 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37870 surface.update_clip_caps(view) 
    37871 File
    37872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37873 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37874 subdivision = settings.clipping_cap_subdivision) 
    37875 File
    37876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37877 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37878 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37879 File
    37880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37881 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37882 cm.set_geometry(varray, narray, tarray) 
    37883 File
    37884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37885 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37886 arv() 
    37887 File
    37888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37889 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37890 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37891 File
    37892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37893 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37894 s.vertex_colors = self.vertex_colors(report_stats) 
    37895 File
    37896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37897 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37898 values, outside = self.volume_values() 
    37899 File
    37900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37901 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37902 return self.offset_values(v, n, tf) 
    37903 File
    37904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37905 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37906 values, outside = self.vertex_values(v, xf) 
    37907 File
    37908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37909 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37910 out_of_bounds_list = True) 
    37911 File
    37912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37913 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37914 subregion, step) 
    37915 File
    37916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37917 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37918 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    37919 File
    37920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37921 packages/chimerax/map/volume.py", line 1243, in
    37922 matrix_indices_to_xyz_transform 
    37923 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    37924 File
    37925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37926 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    37927 r = self.subregion(step, subregion) 
    37928 File
    37929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37930 packages/chimerax/map/volume.py", line 1558, in subregion 
    37931 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37932 AttributeError: 'NoneType' object has no attribute 'size' 
    37933  
    37934 AttributeError: 'NoneType' object has no attribute 'size' 
    37935  
    37936 File
    37937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37938 packages/chimerax/map/volume.py", line 1558, in subregion 
    37939 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    37940  
    37941 See log for complete Python traceback. 
    37942  
    37943 Traceback (most recent call last): 
    37944 File
    37945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37946 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    37947 drew = self.draw_new_frame() 
    37948 File
    37949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37950 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    37951 surface.update_clip_caps(view) 
    37952 File
    37953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37954 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    37955 subdivision = settings.clipping_cap_subdivision) 
    37956 File
    37957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37958 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    37959 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    37960 File
    37961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37962 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    37963 cm.set_geometry(varray, narray, tarray) 
    37964 File
    37965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37966 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    37967 arv() 
    37968 File
    37969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37970 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    37971 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    37972 File
    37973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37974 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    37975 s.vertex_colors = self.vertex_colors(report_stats) 
    37976 File
    37977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37978 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    37979 values, outside = self.volume_values() 
    37980 File
    37981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37982 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    37983 return self.offset_values(v, n, tf) 
    37984 File
    37985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37986 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    37987 values, outside = self.vertex_values(v, xf) 
    37988 File
    37989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37990 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    37991 out_of_bounds_list = True) 
    37992 File
    37993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37994 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    37995 subregion, step) 
    37996 File
    37997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    37998 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    37999 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38000 File
    38001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38002 packages/chimerax/map/volume.py", line 1243, in
    38003 matrix_indices_to_xyz_transform 
    38004 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38005 File
    38006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38007 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38008 r = self.subregion(step, subregion) 
    38009 File
    38010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38011 packages/chimerax/map/volume.py", line 1558, in subregion 
    38012 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38013 AttributeError: 'NoneType' object has no attribute 'size' 
    38014  
    38015 AttributeError: 'NoneType' object has no attribute 'size' 
    38016  
    38017 File
    38018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38019 packages/chimerax/map/volume.py", line 1558, in subregion 
    38020 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38021  
    38022 See log for complete Python traceback. 
    38023  
    38024 Traceback (most recent call last): 
    38025 File
    38026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38027 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38028 drew = self.draw_new_frame() 
    38029 File
    38030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38031 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38032 surface.update_clip_caps(view) 
    38033 File
    38034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38035 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38036 subdivision = settings.clipping_cap_subdivision) 
    38037 File
    38038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38039 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38040 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38041 File
    38042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38043 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38044 cm.set_geometry(varray, narray, tarray) 
    38045 File
    38046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38047 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38048 arv() 
    38049 File
    38050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38051 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38052 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38053 File
    38054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38055 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38056 s.vertex_colors = self.vertex_colors(report_stats) 
    38057 File
    38058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38059 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38060 values, outside = self.volume_values() 
    38061 File
    38062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38063 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38064 return self.offset_values(v, n, tf) 
    38065 File
    38066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38067 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38068 values, outside = self.vertex_values(v, xf) 
    38069 File
    38070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38071 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38072 out_of_bounds_list = True) 
    38073 File
    38074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38075 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38076 subregion, step) 
    38077 File
    38078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38079 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38080 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38081 File
    38082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38083 packages/chimerax/map/volume.py", line 1243, in
    38084 matrix_indices_to_xyz_transform 
    38085 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38086 File
    38087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38088 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38089 r = self.subregion(step, subregion) 
    38090 File
    38091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38092 packages/chimerax/map/volume.py", line 1558, in subregion 
    38093 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38094 AttributeError: 'NoneType' object has no attribute 'size' 
    38095  
    38096 AttributeError: 'NoneType' object has no attribute 'size' 
    38097  
    38098 File
    38099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38100 packages/chimerax/map/volume.py", line 1558, in subregion 
    38101 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38102  
    38103 See log for complete Python traceback. 
    38104  
    38105 Traceback (most recent call last): 
    38106 File
    38107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38108 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38109 drew = self.draw_new_frame() 
    38110 File
    38111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38112 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38113 surface.update_clip_caps(view) 
    38114 File
    38115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38116 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38117 subdivision = settings.clipping_cap_subdivision) 
    38118 File
    38119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38120 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38121 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38122 File
    38123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38124 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38125 cm.set_geometry(varray, narray, tarray) 
    38126 File
    38127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38128 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38129 arv() 
    38130 File
    38131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38132 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38133 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38134 File
    38135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38136 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38137 s.vertex_colors = self.vertex_colors(report_stats) 
    38138 File
    38139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38140 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38141 values, outside = self.volume_values() 
    38142 File
    38143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38144 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38145 return self.offset_values(v, n, tf) 
    38146 File
    38147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38148 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38149 values, outside = self.vertex_values(v, xf) 
    38150 File
    38151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38152 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38153 out_of_bounds_list = True) 
    38154 File
    38155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38156 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38157 subregion, step) 
    38158 File
    38159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38160 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38161 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38162 File
    38163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38164 packages/chimerax/map/volume.py", line 1243, in
    38165 matrix_indices_to_xyz_transform 
    38166 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38167 File
    38168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38169 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38170 r = self.subregion(step, subregion) 
    38171 File
    38172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38173 packages/chimerax/map/volume.py", line 1558, in subregion 
    38174 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38175 AttributeError: 'NoneType' object has no attribute 'size' 
    38176  
    38177 AttributeError: 'NoneType' object has no attribute 'size' 
    38178  
    38179 File
    38180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38181 packages/chimerax/map/volume.py", line 1558, in subregion 
    38182 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38183  
    38184 See log for complete Python traceback. 
    38185  
    38186 Traceback (most recent call last): 
    38187 File
    38188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38189 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38190 drew = self.draw_new_frame() 
    38191 File
    38192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38193 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38194 surface.update_clip_caps(view) 
    38195 File
    38196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38197 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38198 subdivision = settings.clipping_cap_subdivision) 
    38199 File
    38200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38201 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38202 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38203 File
    38204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38205 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38206 cm.set_geometry(varray, narray, tarray) 
    38207 File
    38208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38209 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38210 arv() 
    38211 File
    38212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38213 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38214 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38215 File
    38216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38217 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38218 s.vertex_colors = self.vertex_colors(report_stats) 
    38219 File
    38220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38221 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38222 values, outside = self.volume_values() 
    38223 File
    38224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38225 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38226 return self.offset_values(v, n, tf) 
    38227 File
    38228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38229 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38230 values, outside = self.vertex_values(v, xf) 
    38231 File
    38232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38233 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38234 out_of_bounds_list = True) 
    38235 File
    38236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38237 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38238 subregion, step) 
    38239 File
    38240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38241 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38242 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38243 File
    38244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38245 packages/chimerax/map/volume.py", line 1243, in
    38246 matrix_indices_to_xyz_transform 
    38247 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38248 File
    38249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38250 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38251 r = self.subregion(step, subregion) 
    38252 File
    38253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38254 packages/chimerax/map/volume.py", line 1558, in subregion 
    38255 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38256 AttributeError: 'NoneType' object has no attribute 'size' 
    38257  
    38258 AttributeError: 'NoneType' object has no attribute 'size' 
    38259  
    38260 File
    38261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38262 packages/chimerax/map/volume.py", line 1558, in subregion 
    38263 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38264  
    38265 See log for complete Python traceback. 
    38266  
    38267 Traceback (most recent call last): 
    38268 File
    38269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38270 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38271 drew = self.draw_new_frame() 
    38272 File
    38273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38274 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38275 surface.update_clip_caps(view) 
    38276 File
    38277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38278 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38279 subdivision = settings.clipping_cap_subdivision) 
    38280 File
    38281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38282 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38283 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38284 File
    38285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38286 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38287 cm.set_geometry(varray, narray, tarray) 
    38288 File
    38289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38290 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38291 arv() 
    38292 File
    38293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38294 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38295 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38296 File
    38297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38298 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38299 s.vertex_colors = self.vertex_colors(report_stats) 
    38300 File
    38301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38302 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38303 values, outside = self.volume_values() 
    38304 File
    38305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38306 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38307 return self.offset_values(v, n, tf) 
    38308 File
    38309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38310 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38311 values, outside = self.vertex_values(v, xf) 
    38312 File
    38313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38314 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38315 out_of_bounds_list = True) 
    38316 File
    38317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38318 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38319 subregion, step) 
    38320 File
    38321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38322 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38323 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38324 File
    38325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38326 packages/chimerax/map/volume.py", line 1243, in
    38327 matrix_indices_to_xyz_transform 
    38328 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38329 File
    38330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38331 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38332 r = self.subregion(step, subregion) 
    38333 File
    38334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38335 packages/chimerax/map/volume.py", line 1558, in subregion 
    38336 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38337 AttributeError: 'NoneType' object has no attribute 'size' 
    38338  
    38339 AttributeError: 'NoneType' object has no attribute 'size' 
    38340  
    38341 File
    38342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38343 packages/chimerax/map/volume.py", line 1558, in subregion 
    38344 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38345  
    38346 See log for complete Python traceback. 
    38347  
    38348 Traceback (most recent call last): 
    38349 File
    38350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38351 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38352 drew = self.draw_new_frame() 
    38353 File
    38354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38355 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38356 surface.update_clip_caps(view) 
    38357 File
    38358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38359 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38360 subdivision = settings.clipping_cap_subdivision) 
    38361 File
    38362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38363 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38364 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38365 File
    38366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38367 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38368 cm.set_geometry(varray, narray, tarray) 
    38369 File
    38370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38371 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38372 arv() 
    38373 File
    38374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38375 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38376 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38377 File
    38378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38379 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38380 s.vertex_colors = self.vertex_colors(report_stats) 
    38381 File
    38382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38383 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38384 values, outside = self.volume_values() 
    38385 File
    38386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38387 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38388 return self.offset_values(v, n, tf) 
    38389 File
    38390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38391 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38392 values, outside = self.vertex_values(v, xf) 
    38393 File
    38394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38395 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38396 out_of_bounds_list = True) 
    38397 File
    38398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38399 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38400 subregion, step) 
    38401 File
    38402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38403 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38404 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38405 File
    38406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38407 packages/chimerax/map/volume.py", line 1243, in
    38408 matrix_indices_to_xyz_transform 
    38409 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38410 File
    38411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38412 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38413 r = self.subregion(step, subregion) 
    38414 File
    38415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38416 packages/chimerax/map/volume.py", line 1558, in subregion 
    38417 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38418 AttributeError: 'NoneType' object has no attribute 'size' 
    38419  
    38420 AttributeError: 'NoneType' object has no attribute 'size' 
    38421  
    38422 File
    38423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38424 packages/chimerax/map/volume.py", line 1558, in subregion 
    38425 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38426  
    38427 See log for complete Python traceback. 
    38428  
    38429 Traceback (most recent call last): 
    38430 File
    38431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38432 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38433 drew = self.draw_new_frame() 
    38434 File
    38435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38436 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38437 surface.update_clip_caps(view) 
    38438 File
    38439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38440 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38441 subdivision = settings.clipping_cap_subdivision) 
    38442 File
    38443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38444 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38445 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38446 File
    38447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38448 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38449 cm.set_geometry(varray, narray, tarray) 
    38450 File
    38451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38452 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38453 arv() 
    38454 File
    38455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38456 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38457 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38458 File
    38459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38460 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38461 s.vertex_colors = self.vertex_colors(report_stats) 
    38462 File
    38463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38464 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38465 values, outside = self.volume_values() 
    38466 File
    38467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38468 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38469 return self.offset_values(v, n, tf) 
    38470 File
    38471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38472 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38473 values, outside = self.vertex_values(v, xf) 
    38474 File
    38475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38476 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38477 out_of_bounds_list = True) 
    38478 File
    38479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38480 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38481 subregion, step) 
    38482 File
    38483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38484 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38485 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38486 File
    38487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38488 packages/chimerax/map/volume.py", line 1243, in
    38489 matrix_indices_to_xyz_transform 
    38490 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38491 File
    38492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38493 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38494 r = self.subregion(step, subregion) 
    38495 File
    38496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38497 packages/chimerax/map/volume.py", line 1558, in subregion 
    38498 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38499 AttributeError: 'NoneType' object has no attribute 'size' 
    38500  
    38501 AttributeError: 'NoneType' object has no attribute 'size' 
    38502  
    38503 File
    38504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38505 packages/chimerax/map/volume.py", line 1558, in subregion 
    38506 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38507  
    38508 See log for complete Python traceback. 
    38509  
    38510 Traceback (most recent call last): 
    38511 File
    38512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38513 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38514 drew = self.draw_new_frame() 
    38515 File
    38516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38517 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38518 surface.update_clip_caps(view) 
    38519 File
    38520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38521 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38522 subdivision = settings.clipping_cap_subdivision) 
    38523 File
    38524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38525 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38526 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38527 File
    38528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38529 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38530 cm.set_geometry(varray, narray, tarray) 
    38531 File
    38532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38533 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38534 arv() 
    38535 File
    38536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38537 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38538 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38539 File
    38540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38541 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38542 s.vertex_colors = self.vertex_colors(report_stats) 
    38543 File
    38544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38545 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38546 values, outside = self.volume_values() 
    38547 File
    38548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38549 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38550 return self.offset_values(v, n, tf) 
    38551 File
    38552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38553 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38554 values, outside = self.vertex_values(v, xf) 
    38555 File
    38556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38557 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38558 out_of_bounds_list = True) 
    38559 File
    38560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38561 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38562 subregion, step) 
    38563 File
    38564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38565 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38566 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38567 File
    38568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38569 packages/chimerax/map/volume.py", line 1243, in
    38570 matrix_indices_to_xyz_transform 
    38571 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38572 File
    38573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38574 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38575 r = self.subregion(step, subregion) 
    38576 File
    38577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38578 packages/chimerax/map/volume.py", line 1558, in subregion 
    38579 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38580 AttributeError: 'NoneType' object has no attribute 'size' 
    38581  
    38582 AttributeError: 'NoneType' object has no attribute 'size' 
    38583  
    38584 File
    38585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38586 packages/chimerax/map/volume.py", line 1558, in subregion 
    38587 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38588  
    38589 See log for complete Python traceback. 
    38590  
    38591 Traceback (most recent call last): 
    38592 File
    38593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38594 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38595 drew = self.draw_new_frame() 
    38596 File
    38597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38598 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38599 surface.update_clip_caps(view) 
    38600 File
    38601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38602 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38603 subdivision = settings.clipping_cap_subdivision) 
    38604 File
    38605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38606 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38607 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38608 File
    38609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38610 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38611 cm.set_geometry(varray, narray, tarray) 
    38612 File
    38613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38614 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38615 arv() 
    38616 File
    38617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38618 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38619 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38620 File
    38621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38622 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38623 s.vertex_colors = self.vertex_colors(report_stats) 
    38624 File
    38625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38626 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38627 values, outside = self.volume_values() 
    38628 File
    38629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38630 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38631 return self.offset_values(v, n, tf) 
    38632 File
    38633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38634 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38635 values, outside = self.vertex_values(v, xf) 
    38636 File
    38637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38638 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38639 out_of_bounds_list = True) 
    38640 File
    38641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38642 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38643 subregion, step) 
    38644 File
    38645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38646 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38647 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38648 File
    38649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38650 packages/chimerax/map/volume.py", line 1243, in
    38651 matrix_indices_to_xyz_transform 
    38652 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38653 File
    38654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38655 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38656 r = self.subregion(step, subregion) 
    38657 File
    38658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38659 packages/chimerax/map/volume.py", line 1558, in subregion 
    38660 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38661 AttributeError: 'NoneType' object has no attribute 'size' 
    38662  
    38663 AttributeError: 'NoneType' object has no attribute 'size' 
    38664  
    38665 File
    38666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38667 packages/chimerax/map/volume.py", line 1558, in subregion 
    38668 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38669  
    38670 See log for complete Python traceback. 
    38671  
    38672 Traceback (most recent call last): 
    38673 File
    38674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38675 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38676 drew = self.draw_new_frame() 
    38677 File
    38678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38679 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38680 surface.update_clip_caps(view) 
    38681 File
    38682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38683 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38684 subdivision = settings.clipping_cap_subdivision) 
    38685 File
    38686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38687 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38688 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38689 File
    38690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38691 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38692 cm.set_geometry(varray, narray, tarray) 
    38693 File
    38694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38695 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38696 arv() 
    38697 File
    38698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38699 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38700 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38701 File
    38702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38703 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38704 s.vertex_colors = self.vertex_colors(report_stats) 
    38705 File
    38706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38707 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38708 values, outside = self.volume_values() 
    38709 File
    38710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38711 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38712 return self.offset_values(v, n, tf) 
    38713 File
    38714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38715 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38716 values, outside = self.vertex_values(v, xf) 
    38717 File
    38718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38719 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38720 out_of_bounds_list = True) 
    38721 File
    38722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38723 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38724 subregion, step) 
    38725 File
    38726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38727 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38728 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38729 File
    38730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38731 packages/chimerax/map/volume.py", line 1243, in
    38732 matrix_indices_to_xyz_transform 
    38733 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38734 File
    38735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38736 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38737 r = self.subregion(step, subregion) 
    38738 File
    38739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38740 packages/chimerax/map/volume.py", line 1558, in subregion 
    38741 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38742 AttributeError: 'NoneType' object has no attribute 'size' 
    38743  
    38744 AttributeError: 'NoneType' object has no attribute 'size' 
    38745  
    38746 File
    38747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38748 packages/chimerax/map/volume.py", line 1558, in subregion 
    38749 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38750  
    38751 See log for complete Python traceback. 
    38752  
    38753 Traceback (most recent call last): 
    38754 File
    38755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38756 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38757 drew = self.draw_new_frame() 
    38758 File
    38759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38760 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38761 surface.update_clip_caps(view) 
    38762 File
    38763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38764 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38765 subdivision = settings.clipping_cap_subdivision) 
    38766 File
    38767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38768 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38769 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38770 File
    38771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38772 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38773 cm.set_geometry(varray, narray, tarray) 
    38774 File
    38775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38776 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38777 arv() 
    38778 File
    38779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38780 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38781 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38782 File
    38783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38784 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38785 s.vertex_colors = self.vertex_colors(report_stats) 
    38786 File
    38787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38788 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38789 values, outside = self.volume_values() 
    38790 File
    38791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38792 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38793 return self.offset_values(v, n, tf) 
    38794 File
    38795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38796 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38797 values, outside = self.vertex_values(v, xf) 
    38798 File
    38799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38800 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38801 out_of_bounds_list = True) 
    38802 File
    38803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38804 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38805 subregion, step) 
    38806 File
    38807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38808 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38809 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38810 File
    38811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38812 packages/chimerax/map/volume.py", line 1243, in
    38813 matrix_indices_to_xyz_transform 
    38814 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38815 File
    38816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38817 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38818 r = self.subregion(step, subregion) 
    38819 File
    38820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38821 packages/chimerax/map/volume.py", line 1558, in subregion 
    38822 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38823 AttributeError: 'NoneType' object has no attribute 'size' 
    38824  
    38825 AttributeError: 'NoneType' object has no attribute 'size' 
    38826  
    38827 File
    38828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38829 packages/chimerax/map/volume.py", line 1558, in subregion 
    38830 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38831  
    38832 See log for complete Python traceback. 
    38833  
    38834 Traceback (most recent call last): 
    38835 File
    38836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38837 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38838 drew = self.draw_new_frame() 
    38839 File
    38840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38841 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38842 surface.update_clip_caps(view) 
    38843 File
    38844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38845 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38846 subdivision = settings.clipping_cap_subdivision) 
    38847 File
    38848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38849 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38850 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38851 File
    38852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38853 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38854 cm.set_geometry(varray, narray, tarray) 
    38855 File
    38856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38857 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38858 arv() 
    38859 File
    38860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38861 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38862 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38863 File
    38864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38865 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38866 s.vertex_colors = self.vertex_colors(report_stats) 
    38867 File
    38868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38869 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38870 values, outside = self.volume_values() 
    38871 File
    38872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38873 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38874 return self.offset_values(v, n, tf) 
    38875 File
    38876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38877 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38878 values, outside = self.vertex_values(v, xf) 
    38879 File
    38880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38881 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38882 out_of_bounds_list = True) 
    38883 File
    38884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38885 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38886 subregion, step) 
    38887 File
    38888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38889 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38890 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38891 File
    38892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38893 packages/chimerax/map/volume.py", line 1243, in
    38894 matrix_indices_to_xyz_transform 
    38895 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38896 File
    38897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38898 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38899 r = self.subregion(step, subregion) 
    38900 File
    38901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38902 packages/chimerax/map/volume.py", line 1558, in subregion 
    38903 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38904 AttributeError: 'NoneType' object has no attribute 'size' 
    38905  
    38906 AttributeError: 'NoneType' object has no attribute 'size' 
    38907  
    38908 File
    38909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38910 packages/chimerax/map/volume.py", line 1558, in subregion 
    38911 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38912  
    38913 See log for complete Python traceback. 
    38914  
    38915 Traceback (most recent call last): 
    38916 File
    38917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38918 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    38919 drew = self.draw_new_frame() 
    38920 File
    38921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38922 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    38923 surface.update_clip_caps(view) 
    38924 File
    38925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38926 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    38927 subdivision = settings.clipping_cap_subdivision) 
    38928 File
    38929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38930 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    38931 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    38932 File
    38933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38934 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    38935 cm.set_geometry(varray, narray, tarray) 
    38936 File
    38937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38938 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    38939 arv() 
    38940 File
    38941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38942 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    38943 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    38944 File
    38945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38946 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    38947 s.vertex_colors = self.vertex_colors(report_stats) 
    38948 File
    38949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38950 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    38951 values, outside = self.volume_values() 
    38952 File
    38953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38954 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    38955 return self.offset_values(v, n, tf) 
    38956 File
    38957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38958 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    38959 values, outside = self.vertex_values(v, xf) 
    38960 File
    38961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38962 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    38963 out_of_bounds_list = True) 
    38964 File
    38965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38966 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    38967 subregion, step) 
    38968 File
    38969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38970 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    38971 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    38972 File
    38973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38974 packages/chimerax/map/volume.py", line 1243, in
    38975 matrix_indices_to_xyz_transform 
    38976 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    38977 File
    38978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38979 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    38980 r = self.subregion(step, subregion) 
    38981 File
    38982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38983 packages/chimerax/map/volume.py", line 1558, in subregion 
    38984 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38985 AttributeError: 'NoneType' object has no attribute 'size' 
    38986  
    38987 AttributeError: 'NoneType' object has no attribute 'size' 
    38988  
    38989 File
    38990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38991 packages/chimerax/map/volume.py", line 1558, in subregion 
    38992 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    38993  
    38994 See log for complete Python traceback. 
    38995  
    38996 Traceback (most recent call last): 
    38997 File
    38998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    38999 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39000 drew = self.draw_new_frame() 
    39001 File
    39002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39003 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39004 surface.update_clip_caps(view) 
    39005 File
    39006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39007 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39008 subdivision = settings.clipping_cap_subdivision) 
    39009 File
    39010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39011 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39012 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39013 File
    39014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39015 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39016 cm.set_geometry(varray, narray, tarray) 
    39017 File
    39018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39019 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39020 arv() 
    39021 File
    39022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39023 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39024 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39025 File
    39026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39027 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39028 s.vertex_colors = self.vertex_colors(report_stats) 
    39029 File
    39030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39031 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39032 values, outside = self.volume_values() 
    39033 File
    39034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39035 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39036 return self.offset_values(v, n, tf) 
    39037 File
    39038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39039 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39040 values, outside = self.vertex_values(v, xf) 
    39041 File
    39042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39043 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39044 out_of_bounds_list = True) 
    39045 File
    39046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39047 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39048 subregion, step) 
    39049 File
    39050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39051 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39052 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39053 File
    39054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39055 packages/chimerax/map/volume.py", line 1243, in
    39056 matrix_indices_to_xyz_transform 
    39057 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39058 File
    39059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39060 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39061 r = self.subregion(step, subregion) 
    39062 File
    39063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39064 packages/chimerax/map/volume.py", line 1558, in subregion 
    39065 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39066 AttributeError: 'NoneType' object has no attribute 'size' 
    39067  
    39068 AttributeError: 'NoneType' object has no attribute 'size' 
    39069  
    39070 File
    39071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39072 packages/chimerax/map/volume.py", line 1558, in subregion 
    39073 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39074  
    39075 See log for complete Python traceback. 
    39076  
    39077 Traceback (most recent call last): 
    39078 File
    39079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39080 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39081 drew = self.draw_new_frame() 
    39082 File
    39083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39084 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39085 surface.update_clip_caps(view) 
    39086 File
    39087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39088 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39089 subdivision = settings.clipping_cap_subdivision) 
    39090 File
    39091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39092 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39093 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39094 File
    39095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39096 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39097 cm.set_geometry(varray, narray, tarray) 
    39098 File
    39099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39100 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39101 arv() 
    39102 File
    39103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39104 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39105 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39106 File
    39107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39108 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39109 s.vertex_colors = self.vertex_colors(report_stats) 
    39110 File
    39111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39112 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39113 values, outside = self.volume_values() 
    39114 File
    39115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39116 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39117 return self.offset_values(v, n, tf) 
    39118 File
    39119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39120 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39121 values, outside = self.vertex_values(v, xf) 
    39122 File
    39123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39124 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39125 out_of_bounds_list = True) 
    39126 File
    39127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39128 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39129 subregion, step) 
    39130 File
    39131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39132 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39133 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39134 File
    39135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39136 packages/chimerax/map/volume.py", line 1243, in
    39137 matrix_indices_to_xyz_transform 
    39138 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39139 File
    39140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39141 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39142 r = self.subregion(step, subregion) 
    39143 File
    39144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39145 packages/chimerax/map/volume.py", line 1558, in subregion 
    39146 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39147 AttributeError: 'NoneType' object has no attribute 'size' 
    39148  
    39149 AttributeError: 'NoneType' object has no attribute 'size' 
    39150  
    39151 File
    39152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39153 packages/chimerax/map/volume.py", line 1558, in subregion 
    39154 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39155  
    39156 See log for complete Python traceback. 
    39157  
    39158 Traceback (most recent call last): 
    39159 File
    39160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39161 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39162 drew = self.draw_new_frame() 
    39163 File
    39164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39165 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39166 surface.update_clip_caps(view) 
    39167 File
    39168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39169 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39170 subdivision = settings.clipping_cap_subdivision) 
    39171 File
    39172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39173 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39174 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39175 File
    39176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39177 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39178 cm.set_geometry(varray, narray, tarray) 
    39179 File
    39180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39181 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39182 arv() 
    39183 File
    39184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39185 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39186 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39187 File
    39188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39189 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39190 s.vertex_colors = self.vertex_colors(report_stats) 
    39191 File
    39192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39193 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39194 values, outside = self.volume_values() 
    39195 File
    39196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39197 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39198 return self.offset_values(v, n, tf) 
    39199 File
    39200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39201 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39202 values, outside = self.vertex_values(v, xf) 
    39203 File
    39204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39205 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39206 out_of_bounds_list = True) 
    39207 File
    39208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39209 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39210 subregion, step) 
    39211 File
    39212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39213 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39214 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39215 File
    39216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39217 packages/chimerax/map/volume.py", line 1243, in
    39218 matrix_indices_to_xyz_transform 
    39219 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39220 File
    39221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39222 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39223 r = self.subregion(step, subregion) 
    39224 File
    39225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39226 packages/chimerax/map/volume.py", line 1558, in subregion 
    39227 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39228 AttributeError: 'NoneType' object has no attribute 'size' 
    39229  
    39230 AttributeError: 'NoneType' object has no attribute 'size' 
    39231  
    39232 File
    39233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39234 packages/chimerax/map/volume.py", line 1558, in subregion 
    39235 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39236  
    39237 See log for complete Python traceback. 
    39238  
    39239 Traceback (most recent call last): 
    39240 File
    39241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39242 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39243 drew = self.draw_new_frame() 
    39244 File
    39245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39246 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39247 surface.update_clip_caps(view) 
    39248 File
    39249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39250 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39251 subdivision = settings.clipping_cap_subdivision) 
    39252 File
    39253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39254 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39255 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39256 File
    39257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39258 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39259 cm.set_geometry(varray, narray, tarray) 
    39260 File
    39261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39262 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39263 arv() 
    39264 File
    39265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39266 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39267 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39268 File
    39269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39270 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39271 s.vertex_colors = self.vertex_colors(report_stats) 
    39272 File
    39273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39274 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39275 values, outside = self.volume_values() 
    39276 File
    39277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39278 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39279 return self.offset_values(v, n, tf) 
    39280 File
    39281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39282 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39283 values, outside = self.vertex_values(v, xf) 
    39284 File
    39285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39286 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39287 out_of_bounds_list = True) 
    39288 File
    39289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39290 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39291 subregion, step) 
    39292 File
    39293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39294 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39295 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39296 File
    39297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39298 packages/chimerax/map/volume.py", line 1243, in
    39299 matrix_indices_to_xyz_transform 
    39300 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39301 File
    39302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39303 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39304 r = self.subregion(step, subregion) 
    39305 File
    39306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39307 packages/chimerax/map/volume.py", line 1558, in subregion 
    39308 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39309 AttributeError: 'NoneType' object has no attribute 'size' 
    39310  
    39311 AttributeError: 'NoneType' object has no attribute 'size' 
    39312  
    39313 File
    39314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39315 packages/chimerax/map/volume.py", line 1558, in subregion 
    39316 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39317  
    39318 See log for complete Python traceback. 
    39319  
    39320 Traceback (most recent call last): 
    39321 File
    39322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39323 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39324 drew = self.draw_new_frame() 
    39325 File
    39326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39327 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39328 surface.update_clip_caps(view) 
    39329 File
    39330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39331 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39332 subdivision = settings.clipping_cap_subdivision) 
    39333 File
    39334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39335 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39336 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39337 File
    39338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39339 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39340 cm.set_geometry(varray, narray, tarray) 
    39341 File
    39342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39343 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39344 arv() 
    39345 File
    39346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39347 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39348 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39349 File
    39350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39351 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39352 s.vertex_colors = self.vertex_colors(report_stats) 
    39353 File
    39354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39355 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39356 values, outside = self.volume_values() 
    39357 File
    39358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39359 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39360 return self.offset_values(v, n, tf) 
    39361 File
    39362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39363 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39364 values, outside = self.vertex_values(v, xf) 
    39365 File
    39366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39367 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39368 out_of_bounds_list = True) 
    39369 File
    39370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39371 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39372 subregion, step) 
    39373 File
    39374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39375 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39376 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39377 File
    39378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39379 packages/chimerax/map/volume.py", line 1243, in
    39380 matrix_indices_to_xyz_transform 
    39381 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39382 File
    39383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39384 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39385 r = self.subregion(step, subregion) 
    39386 File
    39387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39388 packages/chimerax/map/volume.py", line 1558, in subregion 
    39389 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39390 AttributeError: 'NoneType' object has no attribute 'size' 
    39391  
    39392 AttributeError: 'NoneType' object has no attribute 'size' 
    39393  
    39394 File
    39395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39396 packages/chimerax/map/volume.py", line 1558, in subregion 
    39397 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39398  
    39399 See log for complete Python traceback. 
    39400  
    39401 Traceback (most recent call last): 
    39402 File
    39403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39404 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39405 drew = self.draw_new_frame() 
    39406 File
    39407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39408 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39409 surface.update_clip_caps(view) 
    39410 File
    39411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39412 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39413 subdivision = settings.clipping_cap_subdivision) 
    39414 File
    39415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39416 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39417 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39418 File
    39419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39420 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39421 cm.set_geometry(varray, narray, tarray) 
    39422 File
    39423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39424 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39425 arv() 
    39426 File
    39427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39428 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39429 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39430 File
    39431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39432 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39433 s.vertex_colors = self.vertex_colors(report_stats) 
    39434 File
    39435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39436 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39437 values, outside = self.volume_values() 
    39438 File
    39439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39440 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39441 return self.offset_values(v, n, tf) 
    39442 File
    39443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39444 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39445 values, outside = self.vertex_values(v, xf) 
    39446 File
    39447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39448 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39449 out_of_bounds_list = True) 
    39450 File
    39451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39452 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39453 subregion, step) 
    39454 File
    39455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39456 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39457 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39458 File
    39459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39460 packages/chimerax/map/volume.py", line 1243, in
    39461 matrix_indices_to_xyz_transform 
    39462 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39463 File
    39464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39465 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39466 r = self.subregion(step, subregion) 
    39467 File
    39468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39469 packages/chimerax/map/volume.py", line 1558, in subregion 
    39470 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39471 AttributeError: 'NoneType' object has no attribute 'size' 
    39472  
    39473 AttributeError: 'NoneType' object has no attribute 'size' 
    39474  
    39475 File
    39476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39477 packages/chimerax/map/volume.py", line 1558, in subregion 
    39478 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39479  
    39480 See log for complete Python traceback. 
    39481  
    39482 Traceback (most recent call last): 
    39483 File
    39484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39485 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39486 drew = self.draw_new_frame() 
    39487 File
    39488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39489 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39490 surface.update_clip_caps(view) 
    39491 File
    39492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39493 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39494 subdivision = settings.clipping_cap_subdivision) 
    39495 File
    39496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39497 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39498 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39499 File
    39500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39501 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39502 cm.set_geometry(varray, narray, tarray) 
    39503 File
    39504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39505 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39506 arv() 
    39507 File
    39508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39509 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39510 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39511 File
    39512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39513 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39514 s.vertex_colors = self.vertex_colors(report_stats) 
    39515 File
    39516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39517 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39518 values, outside = self.volume_values() 
    39519 File
    39520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39521 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39522 return self.offset_values(v, n, tf) 
    39523 File
    39524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39525 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39526 values, outside = self.vertex_values(v, xf) 
    39527 File
    39528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39529 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39530 out_of_bounds_list = True) 
    39531 File
    39532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39533 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39534 subregion, step) 
    39535 File
    39536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39537 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39538 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39539 File
    39540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39541 packages/chimerax/map/volume.py", line 1243, in
    39542 matrix_indices_to_xyz_transform 
    39543 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39544 File
    39545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39546 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39547 r = self.subregion(step, subregion) 
    39548 File
    39549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39550 packages/chimerax/map/volume.py", line 1558, in subregion 
    39551 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39552 AttributeError: 'NoneType' object has no attribute 'size' 
    39553  
    39554 AttributeError: 'NoneType' object has no attribute 'size' 
    39555  
    39556 File
    39557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39558 packages/chimerax/map/volume.py", line 1558, in subregion 
    39559 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39560  
    39561 See log for complete Python traceback. 
    39562  
    39563 Traceback (most recent call last): 
    39564 File
    39565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39566 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39567 drew = self.draw_new_frame() 
    39568 File
    39569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39570 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39571 surface.update_clip_caps(view) 
    39572 File
    39573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39574 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39575 subdivision = settings.clipping_cap_subdivision) 
    39576 File
    39577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39578 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39579 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39580 File
    39581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39582 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39583 cm.set_geometry(varray, narray, tarray) 
    39584 File
    39585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39586 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39587 arv() 
    39588 File
    39589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39590 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39591 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39592 File
    39593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39594 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39595 s.vertex_colors = self.vertex_colors(report_stats) 
    39596 File
    39597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39598 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39599 values, outside = self.volume_values() 
    39600 File
    39601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39602 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39603 return self.offset_values(v, n, tf) 
    39604 File
    39605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39606 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39607 values, outside = self.vertex_values(v, xf) 
    39608 File
    39609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39610 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39611 out_of_bounds_list = True) 
    39612 File
    39613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39614 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39615 subregion, step) 
    39616 File
    39617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39618 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39619 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39620 File
    39621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39622 packages/chimerax/map/volume.py", line 1243, in
    39623 matrix_indices_to_xyz_transform 
    39624 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39625 File
    39626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39627 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39628 r = self.subregion(step, subregion) 
    39629 File
    39630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39631 packages/chimerax/map/volume.py", line 1558, in subregion 
    39632 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39633 AttributeError: 'NoneType' object has no attribute 'size' 
    39634  
    39635 AttributeError: 'NoneType' object has no attribute 'size' 
    39636  
    39637 File
    39638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39639 packages/chimerax/map/volume.py", line 1558, in subregion 
    39640 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39641  
    39642 See log for complete Python traceback. 
    39643  
    39644 Traceback (most recent call last): 
    39645 File
    39646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39647 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39648 drew = self.draw_new_frame() 
    39649 File
    39650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39651 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39652 surface.update_clip_caps(view) 
    39653 File
    39654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39655 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39656 subdivision = settings.clipping_cap_subdivision) 
    39657 File
    39658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39659 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39660 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39661 File
    39662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39663 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39664 cm.set_geometry(varray, narray, tarray) 
    39665 File
    39666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39667 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39668 arv() 
    39669 File
    39670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39671 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39672 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39673 File
    39674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39675 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39676 s.vertex_colors = self.vertex_colors(report_stats) 
    39677 File
    39678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39679 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39680 values, outside = self.volume_values() 
    39681 File
    39682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39683 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39684 return self.offset_values(v, n, tf) 
    39685 File
    39686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39687 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39688 values, outside = self.vertex_values(v, xf) 
    39689 File
    39690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39691 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39692 out_of_bounds_list = True) 
    39693 File
    39694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39695 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39696 subregion, step) 
    39697 File
    39698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39699 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39700 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39701 File
    39702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39703 packages/chimerax/map/volume.py", line 1243, in
    39704 matrix_indices_to_xyz_transform 
    39705 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39706 File
    39707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39708 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39709 r = self.subregion(step, subregion) 
    39710 File
    39711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39712 packages/chimerax/map/volume.py", line 1558, in subregion 
    39713 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39714 AttributeError: 'NoneType' object has no attribute 'size' 
    39715  
    39716 AttributeError: 'NoneType' object has no attribute 'size' 
    39717  
    39718 File
    39719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39720 packages/chimerax/map/volume.py", line 1558, in subregion 
    39721 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39722  
    39723 See log for complete Python traceback. 
    39724  
    39725 Traceback (most recent call last): 
    39726 File
    39727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39728 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39729 drew = self.draw_new_frame() 
    39730 File
    39731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39732 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39733 surface.update_clip_caps(view) 
    39734 File
    39735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39736 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39737 subdivision = settings.clipping_cap_subdivision) 
    39738 File
    39739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39740 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39741 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39742 File
    39743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39744 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39745 cm.set_geometry(varray, narray, tarray) 
    39746 File
    39747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39748 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39749 arv() 
    39750 File
    39751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39752 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39753 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39754 File
    39755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39756 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39757 s.vertex_colors = self.vertex_colors(report_stats) 
    39758 File
    39759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39760 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39761 values, outside = self.volume_values() 
    39762 File
    39763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39764 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39765 return self.offset_values(v, n, tf) 
    39766 File
    39767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39768 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39769 values, outside = self.vertex_values(v, xf) 
    39770 File
    39771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39772 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39773 out_of_bounds_list = True) 
    39774 File
    39775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39776 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39777 subregion, step) 
    39778 File
    39779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39780 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39781 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39782 File
    39783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39784 packages/chimerax/map/volume.py", line 1243, in
    39785 matrix_indices_to_xyz_transform 
    39786 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39787 File
    39788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39789 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39790 r = self.subregion(step, subregion) 
    39791 File
    39792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39793 packages/chimerax/map/volume.py", line 1558, in subregion 
    39794 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39795 AttributeError: 'NoneType' object has no attribute 'size' 
    39796  
    39797 AttributeError: 'NoneType' object has no attribute 'size' 
    39798  
    39799 File
    39800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39801 packages/chimerax/map/volume.py", line 1558, in subregion 
    39802 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39803  
    39804 See log for complete Python traceback. 
    39805  
    39806 Traceback (most recent call last): 
    39807 File
    39808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39809 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39810 drew = self.draw_new_frame() 
    39811 File
    39812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39813 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39814 surface.update_clip_caps(view) 
    39815 File
    39816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39817 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39818 subdivision = settings.clipping_cap_subdivision) 
    39819 File
    39820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39821 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39822 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39823 File
    39824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39825 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39826 cm.set_geometry(varray, narray, tarray) 
    39827 File
    39828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39829 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39830 arv() 
    39831 File
    39832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39833 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39834 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39835 File
    39836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39837 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39838 s.vertex_colors = self.vertex_colors(report_stats) 
    39839 File
    39840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39841 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39842 values, outside = self.volume_values() 
    39843 File
    39844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39845 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39846 return self.offset_values(v, n, tf) 
    39847 File
    39848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39849 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39850 values, outside = self.vertex_values(v, xf) 
    39851 File
    39852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39853 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39854 out_of_bounds_list = True) 
    39855 File
    39856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39857 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39858 subregion, step) 
    39859 File
    39860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39861 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39862 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39863 File
    39864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39865 packages/chimerax/map/volume.py", line 1243, in
    39866 matrix_indices_to_xyz_transform 
    39867 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39868 File
    39869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39870 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39871 r = self.subregion(step, subregion) 
    39872 File
    39873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39874 packages/chimerax/map/volume.py", line 1558, in subregion 
    39875 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39876 AttributeError: 'NoneType' object has no attribute 'size' 
    39877  
    39878 AttributeError: 'NoneType' object has no attribute 'size' 
    39879  
    39880 File
    39881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39882 packages/chimerax/map/volume.py", line 1558, in subregion 
    39883 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39884  
    39885 See log for complete Python traceback. 
    39886  
    39887 Traceback (most recent call last): 
    39888 File
    39889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39890 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39891 drew = self.draw_new_frame() 
    39892 File
    39893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39894 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39895 surface.update_clip_caps(view) 
    39896 File
    39897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39898 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39899 subdivision = settings.clipping_cap_subdivision) 
    39900 File
    39901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39902 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39903 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39904 File
    39905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39906 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39907 cm.set_geometry(varray, narray, tarray) 
    39908 File
    39909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39910 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39911 arv() 
    39912 File
    39913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39914 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39915 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39916 File
    39917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39918 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    39919 s.vertex_colors = self.vertex_colors(report_stats) 
    39920 File
    39921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39922 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    39923 values, outside = self.volume_values() 
    39924 File
    39925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39926 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    39927 return self.offset_values(v, n, tf) 
    39928 File
    39929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39930 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    39931 values, outside = self.vertex_values(v, xf) 
    39932 File
    39933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39934 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    39935 out_of_bounds_list = True) 
    39936 File
    39937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39938 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    39939 subregion, step) 
    39940 File
    39941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39942 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    39943 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    39944 File
    39945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39946 packages/chimerax/map/volume.py", line 1243, in
    39947 matrix_indices_to_xyz_transform 
    39948 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    39949 File
    39950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39951 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    39952 r = self.subregion(step, subregion) 
    39953 File
    39954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39955 packages/chimerax/map/volume.py", line 1558, in subregion 
    39956 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39957 AttributeError: 'NoneType' object has no attribute 'size' 
    39958  
    39959 AttributeError: 'NoneType' object has no attribute 'size' 
    39960  
    39961 File
    39962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39963 packages/chimerax/map/volume.py", line 1558, in subregion 
    39964 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    39965  
    39966 See log for complete Python traceback. 
    39967  
    39968 Traceback (most recent call last): 
    39969 File
    39970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39971 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    39972 drew = self.draw_new_frame() 
    39973 File
    39974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39975 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    39976 surface.update_clip_caps(view) 
    39977 File
    39978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39979 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    39980 subdivision = settings.clipping_cap_subdivision) 
    39981 File
    39982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39983 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    39984 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    39985 File
    39986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39987 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    39988 cm.set_geometry(varray, narray, tarray) 
    39989 File
    39990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39991 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    39992 arv() 
    39993 File
    39994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39995 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    39996 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    39997 File
    39998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    39999 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40000 s.vertex_colors = self.vertex_colors(report_stats) 
    40001 File
    40002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40003 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40004 values, outside = self.volume_values() 
    40005 File
    40006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40007 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40008 return self.offset_values(v, n, tf) 
    40009 File
    40010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40011 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40012 values, outside = self.vertex_values(v, xf) 
    40013 File
    40014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40015 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40016 out_of_bounds_list = True) 
    40017 File
    40018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40019 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40020 subregion, step) 
    40021 File
    40022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40023 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40024 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40025 File
    40026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40027 packages/chimerax/map/volume.py", line 1243, in
    40028 matrix_indices_to_xyz_transform 
    40029 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40030 File
    40031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40032 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40033 r = self.subregion(step, subregion) 
    40034 File
    40035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40036 packages/chimerax/map/volume.py", line 1558, in subregion 
    40037 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40038 AttributeError: 'NoneType' object has no attribute 'size' 
    40039  
    40040 AttributeError: 'NoneType' object has no attribute 'size' 
    40041  
    40042 File
    40043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40044 packages/chimerax/map/volume.py", line 1558, in subregion 
    40045 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40046  
    40047 See log for complete Python traceback. 
    40048  
    40049 Traceback (most recent call last): 
    40050 File
    40051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40052 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40053 drew = self.draw_new_frame() 
    40054 File
    40055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40056 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40057 surface.update_clip_caps(view) 
    40058 File
    40059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40060 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40061 subdivision = settings.clipping_cap_subdivision) 
    40062 File
    40063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40064 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40065 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40066 File
    40067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40068 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40069 cm.set_geometry(varray, narray, tarray) 
    40070 File
    40071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40072 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40073 arv() 
    40074 File
    40075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40076 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40077 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40078 File
    40079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40080 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40081 s.vertex_colors = self.vertex_colors(report_stats) 
    40082 File
    40083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40084 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40085 values, outside = self.volume_values() 
    40086 File
    40087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40088 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40089 return self.offset_values(v, n, tf) 
    40090 File
    40091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40092 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40093 values, outside = self.vertex_values(v, xf) 
    40094 File
    40095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40096 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40097 out_of_bounds_list = True) 
    40098 File
    40099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40100 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40101 subregion, step) 
    40102 File
    40103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40104 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40105 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40106 File
    40107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40108 packages/chimerax/map/volume.py", line 1243, in
    40109 matrix_indices_to_xyz_transform 
    40110 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40111 File
    40112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40113 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40114 r = self.subregion(step, subregion) 
    40115 File
    40116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40117 packages/chimerax/map/volume.py", line 1558, in subregion 
    40118 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40119 AttributeError: 'NoneType' object has no attribute 'size' 
    40120  
    40121 AttributeError: 'NoneType' object has no attribute 'size' 
    40122  
    40123 File
    40124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40125 packages/chimerax/map/volume.py", line 1558, in subregion 
    40126 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40127  
    40128 See log for complete Python traceback. 
    40129  
    40130 Traceback (most recent call last): 
    40131 File
    40132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40133 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40134 drew = self.draw_new_frame() 
    40135 File
    40136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40137 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40138 surface.update_clip_caps(view) 
    40139 File
    40140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40141 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40142 subdivision = settings.clipping_cap_subdivision) 
    40143 File
    40144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40145 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40146 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40147 File
    40148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40149 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40150 cm.set_geometry(varray, narray, tarray) 
    40151 File
    40152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40153 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40154 arv() 
    40155 File
    40156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40157 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40158 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40159 File
    40160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40161 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40162 s.vertex_colors = self.vertex_colors(report_stats) 
    40163 File
    40164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40165 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40166 values, outside = self.volume_values() 
    40167 File
    40168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40169 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40170 return self.offset_values(v, n, tf) 
    40171 File
    40172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40173 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40174 values, outside = self.vertex_values(v, xf) 
    40175 File
    40176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40177 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40178 out_of_bounds_list = True) 
    40179 File
    40180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40181 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40182 subregion, step) 
    40183 File
    40184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40185 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40186 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40187 File
    40188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40189 packages/chimerax/map/volume.py", line 1243, in
    40190 matrix_indices_to_xyz_transform 
    40191 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40192 File
    40193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40194 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40195 r = self.subregion(step, subregion) 
    40196 File
    40197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40198 packages/chimerax/map/volume.py", line 1558, in subregion 
    40199 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40200 AttributeError: 'NoneType' object has no attribute 'size' 
    40201  
    40202 AttributeError: 'NoneType' object has no attribute 'size' 
    40203  
    40204 File
    40205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40206 packages/chimerax/map/volume.py", line 1558, in subregion 
    40207 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40208  
    40209 See log for complete Python traceback. 
    40210  
    40211 Traceback (most recent call last): 
    40212 File
    40213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40214 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40215 drew = self.draw_new_frame() 
    40216 File
    40217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40218 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40219 surface.update_clip_caps(view) 
    40220 File
    40221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40222 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40223 subdivision = settings.clipping_cap_subdivision) 
    40224 File
    40225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40226 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40227 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40228 File
    40229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40230 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40231 cm.set_geometry(varray, narray, tarray) 
    40232 File
    40233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40234 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40235 arv() 
    40236 File
    40237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40238 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40239 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40240 File
    40241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40242 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40243 s.vertex_colors = self.vertex_colors(report_stats) 
    40244 File
    40245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40246 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40247 values, outside = self.volume_values() 
    40248 File
    40249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40250 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40251 return self.offset_values(v, n, tf) 
    40252 File
    40253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40254 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40255 values, outside = self.vertex_values(v, xf) 
    40256 File
    40257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40258 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40259 out_of_bounds_list = True) 
    40260 File
    40261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40262 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40263 subregion, step) 
    40264 File
    40265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40266 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40267 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40268 File
    40269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40270 packages/chimerax/map/volume.py", line 1243, in
    40271 matrix_indices_to_xyz_transform 
    40272 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40273 File
    40274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40275 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40276 r = self.subregion(step, subregion) 
    40277 File
    40278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40279 packages/chimerax/map/volume.py", line 1558, in subregion 
    40280 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40281 AttributeError: 'NoneType' object has no attribute 'size' 
    40282  
    40283 AttributeError: 'NoneType' object has no attribute 'size' 
    40284  
    40285 File
    40286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40287 packages/chimerax/map/volume.py", line 1558, in subregion 
    40288 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40289  
    40290 See log for complete Python traceback. 
    40291  
    40292 Traceback (most recent call last): 
    40293 File
    40294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40295 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40296 drew = self.draw_new_frame() 
    40297 File
    40298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40299 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40300 surface.update_clip_caps(view) 
    40301 File
    40302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40303 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40304 subdivision = settings.clipping_cap_subdivision) 
    40305 File
    40306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40307 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40308 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40309 File
    40310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40311 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40312 cm.set_geometry(varray, narray, tarray) 
    40313 File
    40314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40315 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40316 arv() 
    40317 File
    40318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40319 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40320 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40321 File
    40322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40323 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40324 s.vertex_colors = self.vertex_colors(report_stats) 
    40325 File
    40326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40327 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40328 values, outside = self.volume_values() 
    40329 File
    40330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40331 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40332 return self.offset_values(v, n, tf) 
    40333 File
    40334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40335 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40336 values, outside = self.vertex_values(v, xf) 
    40337 File
    40338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40339 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40340 out_of_bounds_list = True) 
    40341 File
    40342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40343 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40344 subregion, step) 
    40345 File
    40346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40347 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40348 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40349 File
    40350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40351 packages/chimerax/map/volume.py", line 1243, in
    40352 matrix_indices_to_xyz_transform 
    40353 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40354 File
    40355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40356 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40357 r = self.subregion(step, subregion) 
    40358 File
    40359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40360 packages/chimerax/map/volume.py", line 1558, in subregion 
    40361 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40362 AttributeError: 'NoneType' object has no attribute 'size' 
    40363  
    40364 AttributeError: 'NoneType' object has no attribute 'size' 
    40365  
    40366 File
    40367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40368 packages/chimerax/map/volume.py", line 1558, in subregion 
    40369 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40370  
    40371 See log for complete Python traceback. 
    40372  
    40373 Traceback (most recent call last): 
    40374 File
    40375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40376 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40377 drew = self.draw_new_frame() 
    40378 File
    40379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40380 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40381 surface.update_clip_caps(view) 
    40382 File
    40383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40384 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40385 subdivision = settings.clipping_cap_subdivision) 
    40386 File
    40387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40388 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40389 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40390 File
    40391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40392 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40393 cm.set_geometry(varray, narray, tarray) 
    40394 File
    40395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40396 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40397 arv() 
    40398 File
    40399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40400 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40401 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40402 File
    40403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40404 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40405 s.vertex_colors = self.vertex_colors(report_stats) 
    40406 File
    40407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40408 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40409 values, outside = self.volume_values() 
    40410 File
    40411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40412 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40413 return self.offset_values(v, n, tf) 
    40414 File
    40415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40416 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40417 values, outside = self.vertex_values(v, xf) 
    40418 File
    40419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40420 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40421 out_of_bounds_list = True) 
    40422 File
    40423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40424 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40425 subregion, step) 
    40426 File
    40427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40428 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40429 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40430 File
    40431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40432 packages/chimerax/map/volume.py", line 1243, in
    40433 matrix_indices_to_xyz_transform 
    40434 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40435 File
    40436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40437 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40438 r = self.subregion(step, subregion) 
    40439 File
    40440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40441 packages/chimerax/map/volume.py", line 1558, in subregion 
    40442 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40443 AttributeError: 'NoneType' object has no attribute 'size' 
    40444  
    40445 AttributeError: 'NoneType' object has no attribute 'size' 
    40446  
    40447 File
    40448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40449 packages/chimerax/map/volume.py", line 1558, in subregion 
    40450 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40451  
    40452 See log for complete Python traceback. 
    40453  
    40454 Traceback (most recent call last): 
    40455 File
    40456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40457 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40458 drew = self.draw_new_frame() 
    40459 File
    40460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40461 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40462 surface.update_clip_caps(view) 
    40463 File
    40464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40465 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40466 subdivision = settings.clipping_cap_subdivision) 
    40467 File
    40468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40469 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40470 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40471 File
    40472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40473 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40474 cm.set_geometry(varray, narray, tarray) 
    40475 File
    40476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40477 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40478 arv() 
    40479 File
    40480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40481 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40482 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40483 File
    40484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40485 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40486 s.vertex_colors = self.vertex_colors(report_stats) 
    40487 File
    40488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40489 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40490 values, outside = self.volume_values() 
    40491 File
    40492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40493 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40494 return self.offset_values(v, n, tf) 
    40495 File
    40496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40497 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40498 values, outside = self.vertex_values(v, xf) 
    40499 File
    40500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40501 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40502 out_of_bounds_list = True) 
    40503 File
    40504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40505 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40506 subregion, step) 
    40507 File
    40508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40509 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40510 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40511 File
    40512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40513 packages/chimerax/map/volume.py", line 1243, in
    40514 matrix_indices_to_xyz_transform 
    40515 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40516 File
    40517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40518 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40519 r = self.subregion(step, subregion) 
    40520 File
    40521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40522 packages/chimerax/map/volume.py", line 1558, in subregion 
    40523 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40524 AttributeError: 'NoneType' object has no attribute 'size' 
    40525  
    40526 AttributeError: 'NoneType' object has no attribute 'size' 
    40527  
    40528 File
    40529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40530 packages/chimerax/map/volume.py", line 1558, in subregion 
    40531 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40532  
    40533 See log for complete Python traceback. 
    40534  
    40535 Traceback (most recent call last): 
    40536 File
    40537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40538 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40539 drew = self.draw_new_frame() 
    40540 File
    40541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40542 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40543 surface.update_clip_caps(view) 
    40544 File
    40545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40546 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40547 subdivision = settings.clipping_cap_subdivision) 
    40548 File
    40549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40550 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40551 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40552 File
    40553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40554 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40555 cm.set_geometry(varray, narray, tarray) 
    40556 File
    40557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40558 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40559 arv() 
    40560 File
    40561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40562 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40563 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40564 File
    40565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40566 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40567 s.vertex_colors = self.vertex_colors(report_stats) 
    40568 File
    40569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40570 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40571 values, outside = self.volume_values() 
    40572 File
    40573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40574 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40575 return self.offset_values(v, n, tf) 
    40576 File
    40577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40578 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40579 values, outside = self.vertex_values(v, xf) 
    40580 File
    40581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40582 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40583 out_of_bounds_list = True) 
    40584 File
    40585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40586 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40587 subregion, step) 
    40588 File
    40589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40590 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40591 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40592 File
    40593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40594 packages/chimerax/map/volume.py", line 1243, in
    40595 matrix_indices_to_xyz_transform 
    40596 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40597 File
    40598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40599 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40600 r = self.subregion(step, subregion) 
    40601 File
    40602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40603 packages/chimerax/map/volume.py", line 1558, in subregion 
    40604 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40605 AttributeError: 'NoneType' object has no attribute 'size' 
    40606  
    40607 AttributeError: 'NoneType' object has no attribute 'size' 
    40608  
    40609 File
    40610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40611 packages/chimerax/map/volume.py", line 1558, in subregion 
    40612 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40613  
    40614 See log for complete Python traceback. 
    40615  
    40616 Traceback (most recent call last): 
    40617 File
    40618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40619 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40620 drew = self.draw_new_frame() 
    40621 File
    40622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40623 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40624 surface.update_clip_caps(view) 
    40625 File
    40626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40627 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40628 subdivision = settings.clipping_cap_subdivision) 
    40629 File
    40630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40631 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40632 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40633 File
    40634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40635 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40636 cm.set_geometry(varray, narray, tarray) 
    40637 File
    40638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40639 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40640 arv() 
    40641 File
    40642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40643 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40644 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40645 File
    40646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40647 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40648 s.vertex_colors = self.vertex_colors(report_stats) 
    40649 File
    40650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40651 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40652 values, outside = self.volume_values() 
    40653 File
    40654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40655 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40656 return self.offset_values(v, n, tf) 
    40657 File
    40658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40659 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40660 values, outside = self.vertex_values(v, xf) 
    40661 File
    40662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40663 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40664 out_of_bounds_list = True) 
    40665 File
    40666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40667 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40668 subregion, step) 
    40669 File
    40670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40671 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40672 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40673 File
    40674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40675 packages/chimerax/map/volume.py", line 1243, in
    40676 matrix_indices_to_xyz_transform 
    40677 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40678 File
    40679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40680 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40681 r = self.subregion(step, subregion) 
    40682 File
    40683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40684 packages/chimerax/map/volume.py", line 1558, in subregion 
    40685 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40686 AttributeError: 'NoneType' object has no attribute 'size' 
    40687  
    40688 AttributeError: 'NoneType' object has no attribute 'size' 
    40689  
    40690 File
    40691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40692 packages/chimerax/map/volume.py", line 1558, in subregion 
    40693 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40694  
    40695 See log for complete Python traceback. 
    40696  
    40697 Traceback (most recent call last): 
    40698 File
    40699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40700 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40701 drew = self.draw_new_frame() 
    40702 File
    40703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40704 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40705 surface.update_clip_caps(view) 
    40706 File
    40707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40708 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40709 subdivision = settings.clipping_cap_subdivision) 
    40710 File
    40711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40712 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40713 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40714 File
    40715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40716 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40717 cm.set_geometry(varray, narray, tarray) 
    40718 File
    40719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40720 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40721 arv() 
    40722 File
    40723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40724 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40725 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40726 File
    40727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40728 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40729 s.vertex_colors = self.vertex_colors(report_stats) 
    40730 File
    40731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40732 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40733 values, outside = self.volume_values() 
    40734 File
    40735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40736 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40737 return self.offset_values(v, n, tf) 
    40738 File
    40739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40740 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40741 values, outside = self.vertex_values(v, xf) 
    40742 File
    40743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40744 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40745 out_of_bounds_list = True) 
    40746 File
    40747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40748 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40749 subregion, step) 
    40750 File
    40751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40752 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40753 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40754 File
    40755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40756 packages/chimerax/map/volume.py", line 1243, in
    40757 matrix_indices_to_xyz_transform 
    40758 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40759 File
    40760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40761 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40762 r = self.subregion(step, subregion) 
    40763 File
    40764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40765 packages/chimerax/map/volume.py", line 1558, in subregion 
    40766 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40767 AttributeError: 'NoneType' object has no attribute 'size' 
    40768  
    40769 AttributeError: 'NoneType' object has no attribute 'size' 
    40770  
    40771 File
    40772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40773 packages/chimerax/map/volume.py", line 1558, in subregion 
    40774 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40775  
    40776 See log for complete Python traceback. 
    40777  
    40778 Traceback (most recent call last): 
    40779 File
    40780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40781 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40782 drew = self.draw_new_frame() 
    40783 File
    40784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40785 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40786 surface.update_clip_caps(view) 
    40787 File
    40788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40789 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40790 subdivision = settings.clipping_cap_subdivision) 
    40791 File
    40792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40793 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40794 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40795 File
    40796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40797 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40798 cm.set_geometry(varray, narray, tarray) 
    40799 File
    40800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40801 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40802 arv() 
    40803 File
    40804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40805 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40806 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40807 File
    40808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40809 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40810 s.vertex_colors = self.vertex_colors(report_stats) 
    40811 File
    40812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40813 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40814 values, outside = self.volume_values() 
    40815 File
    40816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40817 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40818 return self.offset_values(v, n, tf) 
    40819 File
    40820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40821 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40822 values, outside = self.vertex_values(v, xf) 
    40823 File
    40824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40825 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40826 out_of_bounds_list = True) 
    40827 File
    40828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40829 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40830 subregion, step) 
    40831 File
    40832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40833 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40834 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40835 File
    40836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40837 packages/chimerax/map/volume.py", line 1243, in
    40838 matrix_indices_to_xyz_transform 
    40839 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40840 File
    40841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40842 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40843 r = self.subregion(step, subregion) 
    40844 File
    40845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40846 packages/chimerax/map/volume.py", line 1558, in subregion 
    40847 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40848 AttributeError: 'NoneType' object has no attribute 'size' 
    40849  
    40850 AttributeError: 'NoneType' object has no attribute 'size' 
    40851  
    40852 File
    40853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40854 packages/chimerax/map/volume.py", line 1558, in subregion 
    40855 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40856  
    40857 See log for complete Python traceback. 
    40858  
    40859 Traceback (most recent call last): 
    40860 File
    40861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40862 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40863 drew = self.draw_new_frame() 
    40864 File
    40865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40866 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40867 surface.update_clip_caps(view) 
    40868 File
    40869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40870 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40871 subdivision = settings.clipping_cap_subdivision) 
    40872 File
    40873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40874 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40875 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40876 File
    40877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40878 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40879 cm.set_geometry(varray, narray, tarray) 
    40880 File
    40881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40882 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40883 arv() 
    40884 File
    40885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40886 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40887 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40888 File
    40889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40890 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40891 s.vertex_colors = self.vertex_colors(report_stats) 
    40892 File
    40893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40894 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40895 values, outside = self.volume_values() 
    40896 File
    40897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40898 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40899 return self.offset_values(v, n, tf) 
    40900 File
    40901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40902 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40903 values, outside = self.vertex_values(v, xf) 
    40904 File
    40905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40906 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40907 out_of_bounds_list = True) 
    40908 File
    40909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40910 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40911 subregion, step) 
    40912 File
    40913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40914 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40915 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40916 File
    40917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40918 packages/chimerax/map/volume.py", line 1243, in
    40919 matrix_indices_to_xyz_transform 
    40920 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    40921 File
    40922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40923 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    40924 r = self.subregion(step, subregion) 
    40925 File
    40926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40927 packages/chimerax/map/volume.py", line 1558, in subregion 
    40928 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40929 AttributeError: 'NoneType' object has no attribute 'size' 
    40930  
    40931 AttributeError: 'NoneType' object has no attribute 'size' 
    40932  
    40933 File
    40934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40935 packages/chimerax/map/volume.py", line 1558, in subregion 
    40936 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    40937  
    40938 See log for complete Python traceback. 
    40939  
    40940 Traceback (most recent call last): 
    40941 File
    40942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40943 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    40944 drew = self.draw_new_frame() 
    40945 File
    40946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40947 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    40948 surface.update_clip_caps(view) 
    40949 File
    40950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40951 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    40952 subdivision = settings.clipping_cap_subdivision) 
    40953 File
    40954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40955 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    40956 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    40957 File
    40958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40959 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    40960 cm.set_geometry(varray, narray, tarray) 
    40961 File
    40962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40963 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    40964 arv() 
    40965 File
    40966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40967 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    40968 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    40969 File
    40970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40971 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    40972 s.vertex_colors = self.vertex_colors(report_stats) 
    40973 File
    40974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40975 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    40976 values, outside = self.volume_values() 
    40977 File
    40978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40979 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    40980 return self.offset_values(v, n, tf) 
    40981 File
    40982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40983 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    40984 values, outside = self.vertex_values(v, xf) 
    40985 File
    40986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40987 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    40988 out_of_bounds_list = True) 
    40989 File
    40990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40991 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    40992 subregion, step) 
    40993 File
    40994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40995 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    40996 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    40997 File
    40998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    40999 packages/chimerax/map/volume.py", line 1243, in
    41000 matrix_indices_to_xyz_transform 
    41001 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41002 File
    41003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41004 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41005 r = self.subregion(step, subregion) 
    41006 File
    41007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41008 packages/chimerax/map/volume.py", line 1558, in subregion 
    41009 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41010 AttributeError: 'NoneType' object has no attribute 'size' 
    41011  
    41012 AttributeError: 'NoneType' object has no attribute 'size' 
    41013  
    41014 File
    41015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41016 packages/chimerax/map/volume.py", line 1558, in subregion 
    41017 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41018  
    41019 See log for complete Python traceback. 
    41020  
    41021 Traceback (most recent call last): 
    41022 File
    41023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41024 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41025 drew = self.draw_new_frame() 
    41026 File
    41027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41028 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41029 surface.update_clip_caps(view) 
    41030 File
    41031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41032 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41033 subdivision = settings.clipping_cap_subdivision) 
    41034 File
    41035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41036 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41037 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41038 File
    41039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41040 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41041 cm.set_geometry(varray, narray, tarray) 
    41042 File
    41043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41044 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41045 arv() 
    41046 File
    41047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41048 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41049 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41050 File
    41051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41052 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41053 s.vertex_colors = self.vertex_colors(report_stats) 
    41054 File
    41055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41056 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41057 values, outside = self.volume_values() 
    41058 File
    41059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41060 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41061 return self.offset_values(v, n, tf) 
    41062 File
    41063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41064 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41065 values, outside = self.vertex_values(v, xf) 
    41066 File
    41067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41068 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41069 out_of_bounds_list = True) 
    41070 File
    41071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41072 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41073 subregion, step) 
    41074 File
    41075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41076 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41077 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41078 File
    41079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41080 packages/chimerax/map/volume.py", line 1243, in
    41081 matrix_indices_to_xyz_transform 
    41082 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41083 File
    41084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41085 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41086 r = self.subregion(step, subregion) 
    41087 File
    41088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41089 packages/chimerax/map/volume.py", line 1558, in subregion 
    41090 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41091 AttributeError: 'NoneType' object has no attribute 'size' 
    41092  
    41093 AttributeError: 'NoneType' object has no attribute 'size' 
    41094  
    41095 File
    41096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41097 packages/chimerax/map/volume.py", line 1558, in subregion 
    41098 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41099  
    41100 See log for complete Python traceback. 
    41101  
    41102 Traceback (most recent call last): 
    41103 File
    41104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41105 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41106 drew = self.draw_new_frame() 
    41107 File
    41108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41109 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41110 surface.update_clip_caps(view) 
    41111 File
    41112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41113 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41114 subdivision = settings.clipping_cap_subdivision) 
    41115 File
    41116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41117 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41118 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41119 File
    41120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41121 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41122 cm.set_geometry(varray, narray, tarray) 
    41123 File
    41124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41125 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41126 arv() 
    41127 File
    41128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41129 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41130 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41131 File
    41132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41133 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41134 s.vertex_colors = self.vertex_colors(report_stats) 
    41135 File
    41136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41137 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41138 values, outside = self.volume_values() 
    41139 File
    41140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41141 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41142 return self.offset_values(v, n, tf) 
    41143 File
    41144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41145 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41146 values, outside = self.vertex_values(v, xf) 
    41147 File
    41148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41149 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41150 out_of_bounds_list = True) 
    41151 File
    41152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41153 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41154 subregion, step) 
    41155 File
    41156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41157 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41158 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41159 File
    41160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41161 packages/chimerax/map/volume.py", line 1243, in
    41162 matrix_indices_to_xyz_transform 
    41163 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41164 File
    41165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41166 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41167 r = self.subregion(step, subregion) 
    41168 File
    41169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41170 packages/chimerax/map/volume.py", line 1558, in subregion 
    41171 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41172 AttributeError: 'NoneType' object has no attribute 'size' 
    41173  
    41174 AttributeError: 'NoneType' object has no attribute 'size' 
    41175  
    41176 File
    41177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41178 packages/chimerax/map/volume.py", line 1558, in subregion 
    41179 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41180  
    41181 See log for complete Python traceback. 
    41182  
    41183 Traceback (most recent call last): 
    41184 File
    41185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41186 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41187 drew = self.draw_new_frame() 
    41188 File
    41189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41190 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41191 surface.update_clip_caps(view) 
    41192 File
    41193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41194 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41195 subdivision = settings.clipping_cap_subdivision) 
    41196 File
    41197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41198 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41199 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41200 File
    41201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41202 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41203 cm.set_geometry(varray, narray, tarray) 
    41204 File
    41205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41206 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41207 arv() 
    41208 File
    41209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41210 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41211 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41212 File
    41213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41214 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41215 s.vertex_colors = self.vertex_colors(report_stats) 
    41216 File
    41217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41218 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41219 values, outside = self.volume_values() 
    41220 File
    41221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41222 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41223 return self.offset_values(v, n, tf) 
    41224 File
    41225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41226 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41227 values, outside = self.vertex_values(v, xf) 
    41228 File
    41229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41230 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41231 out_of_bounds_list = True) 
    41232 File
    41233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41234 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41235 subregion, step) 
    41236 File
    41237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41238 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41239 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41240 File
    41241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41242 packages/chimerax/map/volume.py", line 1243, in
    41243 matrix_indices_to_xyz_transform 
    41244 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41245 File
    41246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41247 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41248 r = self.subregion(step, subregion) 
    41249 File
    41250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41251 packages/chimerax/map/volume.py", line 1558, in subregion 
    41252 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41253 AttributeError: 'NoneType' object has no attribute 'size' 
    41254  
    41255 AttributeError: 'NoneType' object has no attribute 'size' 
    41256  
    41257 File
    41258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41259 packages/chimerax/map/volume.py", line 1558, in subregion 
    41260 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41261  
    41262 See log for complete Python traceback. 
    41263  
    41264 Traceback (most recent call last): 
    41265 File
    41266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41267 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41268 drew = self.draw_new_frame() 
    41269 File
    41270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41271 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41272 surface.update_clip_caps(view) 
    41273 File
    41274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41275 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41276 subdivision = settings.clipping_cap_subdivision) 
    41277 File
    41278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41279 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41280 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41281 File
    41282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41283 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41284 cm.set_geometry(varray, narray, tarray) 
    41285 File
    41286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41287 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41288 arv() 
    41289 File
    41290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41291 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41292 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41293 File
    41294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41295 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41296 s.vertex_colors = self.vertex_colors(report_stats) 
    41297 File
    41298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41299 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41300 values, outside = self.volume_values() 
    41301 File
    41302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41303 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41304 return self.offset_values(v, n, tf) 
    41305 File
    41306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41307 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41308 values, outside = self.vertex_values(v, xf) 
    41309 File
    41310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41311 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41312 out_of_bounds_list = True) 
    41313 File
    41314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41315 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41316 subregion, step) 
    41317 File
    41318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41319 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41320 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41321 File
    41322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41323 packages/chimerax/map/volume.py", line 1243, in
    41324 matrix_indices_to_xyz_transform 
    41325 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41326 File
    41327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41328 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41329 r = self.subregion(step, subregion) 
    41330 File
    41331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41332 packages/chimerax/map/volume.py", line 1558, in subregion 
    41333 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41334 AttributeError: 'NoneType' object has no attribute 'size' 
    41335  
    41336 AttributeError: 'NoneType' object has no attribute 'size' 
    41337  
    41338 File
    41339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41340 packages/chimerax/map/volume.py", line 1558, in subregion 
    41341 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41342  
    41343 See log for complete Python traceback. 
    41344  
    41345 Traceback (most recent call last): 
    41346 File
    41347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41348 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41349 drew = self.draw_new_frame() 
    41350 File
    41351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41352 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41353 surface.update_clip_caps(view) 
    41354 File
    41355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41356 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41357 subdivision = settings.clipping_cap_subdivision) 
    41358 File
    41359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41360 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41361 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41362 File
    41363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41364 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41365 cm.set_geometry(varray, narray, tarray) 
    41366 File
    41367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41368 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41369 arv() 
    41370 File
    41371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41372 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41373 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41374 File
    41375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41376 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41377 s.vertex_colors = self.vertex_colors(report_stats) 
    41378 File
    41379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41380 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41381 values, outside = self.volume_values() 
    41382 File
    41383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41384 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41385 return self.offset_values(v, n, tf) 
    41386 File
    41387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41388 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41389 values, outside = self.vertex_values(v, xf) 
    41390 File
    41391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41392 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41393 out_of_bounds_list = True) 
    41394 File
    41395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41396 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41397 subregion, step) 
    41398 File
    41399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41400 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41401 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41402 File
    41403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41404 packages/chimerax/map/volume.py", line 1243, in
    41405 matrix_indices_to_xyz_transform 
    41406 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41407 File
    41408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41409 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41410 r = self.subregion(step, subregion) 
    41411 File
    41412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41413 packages/chimerax/map/volume.py", line 1558, in subregion 
    41414 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41415 AttributeError: 'NoneType' object has no attribute 'size' 
    41416  
    41417 AttributeError: 'NoneType' object has no attribute 'size' 
    41418  
    41419 File
    41420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41421 packages/chimerax/map/volume.py", line 1558, in subregion 
    41422 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41423  
    41424 See log for complete Python traceback. 
    41425  
    41426 Traceback (most recent call last): 
    41427 File
    41428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41429 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41430 drew = self.draw_new_frame() 
    41431 File
    41432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41433 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41434 surface.update_clip_caps(view) 
    41435 File
    41436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41437 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41438 subdivision = settings.clipping_cap_subdivision) 
    41439 File
    41440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41441 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41442 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41443 File
    41444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41445 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41446 cm.set_geometry(varray, narray, tarray) 
    41447 File
    41448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41449 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41450 arv() 
    41451 File
    41452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41453 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41454 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41455 File
    41456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41457 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41458 s.vertex_colors = self.vertex_colors(report_stats) 
    41459 File
    41460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41461 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41462 values, outside = self.volume_values() 
    41463 File
    41464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41465 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41466 return self.offset_values(v, n, tf) 
    41467 File
    41468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41469 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41470 values, outside = self.vertex_values(v, xf) 
    41471 File
    41472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41473 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41474 out_of_bounds_list = True) 
    41475 File
    41476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41477 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41478 subregion, step) 
    41479 File
    41480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41481 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41482 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41483 File
    41484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41485 packages/chimerax/map/volume.py", line 1243, in
    41486 matrix_indices_to_xyz_transform 
    41487 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41488 File
    41489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41490 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41491 r = self.subregion(step, subregion) 
    41492 File
    41493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41494 packages/chimerax/map/volume.py", line 1558, in subregion 
    41495 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41496 AttributeError: 'NoneType' object has no attribute 'size' 
    41497  
    41498 AttributeError: 'NoneType' object has no attribute 'size' 
    41499  
    41500 File
    41501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41502 packages/chimerax/map/volume.py", line 1558, in subregion 
    41503 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41504  
    41505 See log for complete Python traceback. 
    41506  
    41507 Traceback (most recent call last): 
    41508 File
    41509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41510 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41511 drew = self.draw_new_frame() 
    41512 File
    41513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41514 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41515 surface.update_clip_caps(view) 
    41516 File
    41517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41518 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41519 subdivision = settings.clipping_cap_subdivision) 
    41520 File
    41521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41522 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41523 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41524 File
    41525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41526 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41527 cm.set_geometry(varray, narray, tarray) 
    41528 File
    41529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41530 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41531 arv() 
    41532 File
    41533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41534 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41535 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41536 File
    41537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41538 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41539 s.vertex_colors = self.vertex_colors(report_stats) 
    41540 File
    41541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41542 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41543 values, outside = self.volume_values() 
    41544 File
    41545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41546 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41547 return self.offset_values(v, n, tf) 
    41548 File
    41549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41550 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41551 values, outside = self.vertex_values(v, xf) 
    41552 File
    41553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41554 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41555 out_of_bounds_list = True) 
    41556 File
    41557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41558 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41559 subregion, step) 
    41560 File
    41561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41562 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41563 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41564 File
    41565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41566 packages/chimerax/map/volume.py", line 1243, in
    41567 matrix_indices_to_xyz_transform 
    41568 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41569 File
    41570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41571 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41572 r = self.subregion(step, subregion) 
    41573 File
    41574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41575 packages/chimerax/map/volume.py", line 1558, in subregion 
    41576 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41577 AttributeError: 'NoneType' object has no attribute 'size' 
    41578  
    41579 AttributeError: 'NoneType' object has no attribute 'size' 
    41580  
    41581 File
    41582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41583 packages/chimerax/map/volume.py", line 1558, in subregion 
    41584 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41585  
    41586 See log for complete Python traceback. 
    41587  
    41588 Traceback (most recent call last): 
    41589 File
    41590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41591 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41592 drew = self.draw_new_frame() 
    41593 File
    41594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41595 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41596 surface.update_clip_caps(view) 
    41597 File
    41598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41599 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41600 subdivision = settings.clipping_cap_subdivision) 
    41601 File
    41602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41603 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41604 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41605 File
    41606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41607 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41608 cm.set_geometry(varray, narray, tarray) 
    41609 File
    41610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41611 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41612 arv() 
    41613 File
    41614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41615 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41616 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41617 File
    41618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41619 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41620 s.vertex_colors = self.vertex_colors(report_stats) 
    41621 File
    41622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41623 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41624 values, outside = self.volume_values() 
    41625 File
    41626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41627 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41628 return self.offset_values(v, n, tf) 
    41629 File
    41630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41631 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41632 values, outside = self.vertex_values(v, xf) 
    41633 File
    41634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41635 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41636 out_of_bounds_list = True) 
    41637 File
    41638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41639 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41640 subregion, step) 
    41641 File
    41642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41643 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41644 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41645 File
    41646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41647 packages/chimerax/map/volume.py", line 1243, in
    41648 matrix_indices_to_xyz_transform 
    41649 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41650 File
    41651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41652 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41653 r = self.subregion(step, subregion) 
    41654 File
    41655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41656 packages/chimerax/map/volume.py", line 1558, in subregion 
    41657 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41658 AttributeError: 'NoneType' object has no attribute 'size' 
    41659  
    41660 AttributeError: 'NoneType' object has no attribute 'size' 
    41661  
    41662 File
    41663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41664 packages/chimerax/map/volume.py", line 1558, in subregion 
    41665 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41666  
    41667 See log for complete Python traceback. 
    41668  
    41669 Traceback (most recent call last): 
    41670 File
    41671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41672 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41673 drew = self.draw_new_frame() 
    41674 File
    41675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41676 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41677 surface.update_clip_caps(view) 
    41678 File
    41679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41680 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41681 subdivision = settings.clipping_cap_subdivision) 
    41682 File
    41683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41684 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41685 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41686 File
    41687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41688 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41689 cm.set_geometry(varray, narray, tarray) 
    41690 File
    41691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41692 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41693 arv() 
    41694 File
    41695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41696 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41697 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41698 File
    41699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41700 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41701 s.vertex_colors = self.vertex_colors(report_stats) 
    41702 File
    41703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41704 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41705 values, outside = self.volume_values() 
    41706 File
    41707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41708 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41709 return self.offset_values(v, n, tf) 
    41710 File
    41711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41712 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41713 values, outside = self.vertex_values(v, xf) 
    41714 File
    41715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41716 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41717 out_of_bounds_list = True) 
    41718 File
    41719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41720 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41721 subregion, step) 
    41722 File
    41723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41724 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41725 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41726 File
    41727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41728 packages/chimerax/map/volume.py", line 1243, in
    41729 matrix_indices_to_xyz_transform 
    41730 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41731 File
    41732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41733 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41734 r = self.subregion(step, subregion) 
    41735 File
    41736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41737 packages/chimerax/map/volume.py", line 1558, in subregion 
    41738 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41739 AttributeError: 'NoneType' object has no attribute 'size' 
    41740  
    41741 AttributeError: 'NoneType' object has no attribute 'size' 
    41742  
    41743 File
    41744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41745 packages/chimerax/map/volume.py", line 1558, in subregion 
    41746 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41747  
    41748 See log for complete Python traceback. 
    41749  
    41750 Traceback (most recent call last): 
    41751 File
    41752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41753 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41754 drew = self.draw_new_frame() 
    41755 File
    41756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41757 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41758 surface.update_clip_caps(view) 
    41759 File
    41760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41761 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41762 subdivision = settings.clipping_cap_subdivision) 
    41763 File
    41764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41765 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41766 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41767 File
    41768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41769 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41770 cm.set_geometry(varray, narray, tarray) 
    41771 File
    41772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41773 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41774 arv() 
    41775 File
    41776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41777 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41778 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41779 File
    41780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41781 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41782 s.vertex_colors = self.vertex_colors(report_stats) 
    41783 File
    41784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41785 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41786 values, outside = self.volume_values() 
    41787 File
    41788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41789 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41790 return self.offset_values(v, n, tf) 
    41791 File
    41792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41793 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41794 values, outside = self.vertex_values(v, xf) 
    41795 File
    41796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41797 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41798 out_of_bounds_list = True) 
    41799 File
    41800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41801 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41802 subregion, step) 
    41803 File
    41804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41805 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41806 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41807 File
    41808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41809 packages/chimerax/map/volume.py", line 1243, in
    41810 matrix_indices_to_xyz_transform 
    41811 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41812 File
    41813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41814 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41815 r = self.subregion(step, subregion) 
    41816 File
    41817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41818 packages/chimerax/map/volume.py", line 1558, in subregion 
    41819 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41820 AttributeError: 'NoneType' object has no attribute 'size' 
    41821  
    41822 AttributeError: 'NoneType' object has no attribute 'size' 
    41823  
    41824 File
    41825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41826 packages/chimerax/map/volume.py", line 1558, in subregion 
    41827 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41828  
    41829 See log for complete Python traceback. 
    41830  
    41831 Traceback (most recent call last): 
    41832 File
    41833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41834 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41835 drew = self.draw_new_frame() 
    41836 File
    41837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41838 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41839 surface.update_clip_caps(view) 
    41840 File
    41841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41842 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41843 subdivision = settings.clipping_cap_subdivision) 
    41844 File
    41845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41846 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41847 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41848 File
    41849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41850 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41851 cm.set_geometry(varray, narray, tarray) 
    41852 File
    41853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41854 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41855 arv() 
    41856 File
    41857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41858 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41859 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41860 File
    41861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41862 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41863 s.vertex_colors = self.vertex_colors(report_stats) 
    41864 File
    41865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41866 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41867 values, outside = self.volume_values() 
    41868 File
    41869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41870 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41871 return self.offset_values(v, n, tf) 
    41872 File
    41873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41874 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41875 values, outside = self.vertex_values(v, xf) 
    41876 File
    41877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41878 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41879 out_of_bounds_list = True) 
    41880 File
    41881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41882 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41883 subregion, step) 
    41884 File
    41885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41886 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41887 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41888 File
    41889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41890 packages/chimerax/map/volume.py", line 1243, in
    41891 matrix_indices_to_xyz_transform 
    41892 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41893 File
    41894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41895 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41896 r = self.subregion(step, subregion) 
    41897 File
    41898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41899 packages/chimerax/map/volume.py", line 1558, in subregion 
    41900 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41901 AttributeError: 'NoneType' object has no attribute 'size' 
    41902  
    41903 AttributeError: 'NoneType' object has no attribute 'size' 
    41904  
    41905 File
    41906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41907 packages/chimerax/map/volume.py", line 1558, in subregion 
    41908 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41909  
    41910 See log for complete Python traceback. 
    41911  
    41912 Traceback (most recent call last): 
    41913 File
    41914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41915 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41916 drew = self.draw_new_frame() 
    41917 File
    41918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41919 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    41920 surface.update_clip_caps(view) 
    41921 File
    41922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41923 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    41924 subdivision = settings.clipping_cap_subdivision) 
    41925 File
    41926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41927 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    41928 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    41929 File
    41930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41931 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    41932 cm.set_geometry(varray, narray, tarray) 
    41933 File
    41934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41935 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    41936 arv() 
    41937 File
    41938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41939 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    41940 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    41941 File
    41942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41943 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    41944 s.vertex_colors = self.vertex_colors(report_stats) 
    41945 File
    41946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41947 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    41948 values, outside = self.volume_values() 
    41949 File
    41950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41951 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    41952 return self.offset_values(v, n, tf) 
    41953 File
    41954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41955 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    41956 values, outside = self.vertex_values(v, xf) 
    41957 File
    41958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41959 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    41960 out_of_bounds_list = True) 
    41961 File
    41962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41963 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    41964 subregion, step) 
    41965 File
    41966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41967 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    41968 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    41969 File
    41970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41971 packages/chimerax/map/volume.py", line 1243, in
    41972 matrix_indices_to_xyz_transform 
    41973 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    41974 File
    41975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41976 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    41977 r = self.subregion(step, subregion) 
    41978 File
    41979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41980 packages/chimerax/map/volume.py", line 1558, in subregion 
    41981 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41982 AttributeError: 'NoneType' object has no attribute 'size' 
    41983  
    41984 AttributeError: 'NoneType' object has no attribute 'size' 
    41985  
    41986 File
    41987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41988 packages/chimerax/map/volume.py", line 1558, in subregion 
    41989 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    41990  
    41991 See log for complete Python traceback. 
    41992  
    41993 Traceback (most recent call last): 
    41994 File
    41995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    41996 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    41997 drew = self.draw_new_frame() 
    41998 File
    41999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42000 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42001 surface.update_clip_caps(view) 
    42002 File
    42003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42004 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42005 subdivision = settings.clipping_cap_subdivision) 
    42006 File
    42007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42008 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42009 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42010 File
    42011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42012 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42013 cm.set_geometry(varray, narray, tarray) 
    42014 File
    42015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42016 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42017 arv() 
    42018 File
    42019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42020 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42021 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42022 File
    42023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42024 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42025 s.vertex_colors = self.vertex_colors(report_stats) 
    42026 File
    42027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42028 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42029 values, outside = self.volume_values() 
    42030 File
    42031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42032 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42033 return self.offset_values(v, n, tf) 
    42034 File
    42035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42036 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42037 values, outside = self.vertex_values(v, xf) 
    42038 File
    42039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42040 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42041 out_of_bounds_list = True) 
    42042 File
    42043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42044 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42045 subregion, step) 
    42046 File
    42047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42048 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42049 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42050 File
    42051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42052 packages/chimerax/map/volume.py", line 1243, in
    42053 matrix_indices_to_xyz_transform 
    42054 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42055 File
    42056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42057 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42058 r = self.subregion(step, subregion) 
    42059 File
    42060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42061 packages/chimerax/map/volume.py", line 1558, in subregion 
    42062 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42063 AttributeError: 'NoneType' object has no attribute 'size' 
    42064  
    42065 AttributeError: 'NoneType' object has no attribute 'size' 
    42066  
    42067 File
    42068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42069 packages/chimerax/map/volume.py", line 1558, in subregion 
    42070 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42071  
    42072 See log for complete Python traceback. 
    42073  
    42074 Traceback (most recent call last): 
    42075 File
    42076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42077 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42078 drew = self.draw_new_frame() 
    42079 File
    42080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42081 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42082 surface.update_clip_caps(view) 
    42083 File
    42084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42085 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42086 subdivision = settings.clipping_cap_subdivision) 
    42087 File
    42088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42089 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42090 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42091 File
    42092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42093 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42094 cm.set_geometry(varray, narray, tarray) 
    42095 File
    42096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42097 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42098 arv() 
    42099 File
    42100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42101 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42102 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42103 File
    42104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42105 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42106 s.vertex_colors = self.vertex_colors(report_stats) 
    42107 File
    42108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42109 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42110 values, outside = self.volume_values() 
    42111 File
    42112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42113 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42114 return self.offset_values(v, n, tf) 
    42115 File
    42116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42117 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42118 values, outside = self.vertex_values(v, xf) 
    42119 File
    42120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42121 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42122 out_of_bounds_list = True) 
    42123 File
    42124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42125 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42126 subregion, step) 
    42127 File
    42128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42129 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42130 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42131 File
    42132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42133 packages/chimerax/map/volume.py", line 1243, in
    42134 matrix_indices_to_xyz_transform 
    42135 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42136 File
    42137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42138 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42139 r = self.subregion(step, subregion) 
    42140 File
    42141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42142 packages/chimerax/map/volume.py", line 1558, in subregion 
    42143 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42144 AttributeError: 'NoneType' object has no attribute 'size' 
    42145  
    42146 AttributeError: 'NoneType' object has no attribute 'size' 
    42147  
    42148 File
    42149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42150 packages/chimerax/map/volume.py", line 1558, in subregion 
    42151 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42152  
    42153 See log for complete Python traceback. 
    42154  
    42155 Traceback (most recent call last): 
    42156 File
    42157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42158 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42159 drew = self.draw_new_frame() 
    42160 File
    42161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42162 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42163 surface.update_clip_caps(view) 
    42164 File
    42165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42166 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42167 subdivision = settings.clipping_cap_subdivision) 
    42168 File
    42169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42170 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42171 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42172 File
    42173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42174 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42175 cm.set_geometry(varray, narray, tarray) 
    42176 File
    42177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42178 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42179 arv() 
    42180 File
    42181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42182 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42183 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42184 File
    42185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42186 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42187 s.vertex_colors = self.vertex_colors(report_stats) 
    42188 File
    42189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42190 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42191 values, outside = self.volume_values() 
    42192 File
    42193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42194 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42195 return self.offset_values(v, n, tf) 
    42196 File
    42197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42198 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42199 values, outside = self.vertex_values(v, xf) 
    42200 File
    42201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42202 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42203 out_of_bounds_list = True) 
    42204 File
    42205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42206 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42207 subregion, step) 
    42208 File
    42209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42210 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42211 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42212 File
    42213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42214 packages/chimerax/map/volume.py", line 1243, in
    42215 matrix_indices_to_xyz_transform 
    42216 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42217 File
    42218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42219 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42220 r = self.subregion(step, subregion) 
    42221 File
    42222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42223 packages/chimerax/map/volume.py", line 1558, in subregion 
    42224 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42225 AttributeError: 'NoneType' object has no attribute 'size' 
    42226  
    42227 AttributeError: 'NoneType' object has no attribute 'size' 
    42228  
    42229 File
    42230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42231 packages/chimerax/map/volume.py", line 1558, in subregion 
    42232 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42233  
    42234 See log for complete Python traceback. 
    42235  
    42236 Traceback (most recent call last): 
    42237 File
    42238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42239 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42240 drew = self.draw_new_frame() 
    42241 File
    42242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42243 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42244 surface.update_clip_caps(view) 
    42245 File
    42246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42247 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42248 subdivision = settings.clipping_cap_subdivision) 
    42249 File
    42250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42251 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42252 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42253 File
    42254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42255 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42256 cm.set_geometry(varray, narray, tarray) 
    42257 File
    42258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42259 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42260 arv() 
    42261 File
    42262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42263 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42264 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42265 File
    42266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42267 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42268 s.vertex_colors = self.vertex_colors(report_stats) 
    42269 File
    42270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42271 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42272 values, outside = self.volume_values() 
    42273 File
    42274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42275 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42276 return self.offset_values(v, n, tf) 
    42277 File
    42278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42279 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42280 values, outside = self.vertex_values(v, xf) 
    42281 File
    42282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42283 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42284 out_of_bounds_list = True) 
    42285 File
    42286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42287 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42288 subregion, step) 
    42289 File
    42290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42291 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42292 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42293 File
    42294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42295 packages/chimerax/map/volume.py", line 1243, in
    42296 matrix_indices_to_xyz_transform 
    42297 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42298 File
    42299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42300 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42301 r = self.subregion(step, subregion) 
    42302 File
    42303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42304 packages/chimerax/map/volume.py", line 1558, in subregion 
    42305 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42306 AttributeError: 'NoneType' object has no attribute 'size' 
    42307  
    42308 AttributeError: 'NoneType' object has no attribute 'size' 
    42309  
    42310 File
    42311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42312 packages/chimerax/map/volume.py", line 1558, in subregion 
    42313 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42314  
    42315 See log for complete Python traceback. 
    42316  
    42317 Traceback (most recent call last): 
    42318 File
    42319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42320 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42321 drew = self.draw_new_frame() 
    42322 File
    42323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42324 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42325 surface.update_clip_caps(view) 
    42326 File
    42327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42328 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42329 subdivision = settings.clipping_cap_subdivision) 
    42330 File
    42331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42332 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42333 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42334 File
    42335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42336 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42337 cm.set_geometry(varray, narray, tarray) 
    42338 File
    42339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42340 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42341 arv() 
    42342 File
    42343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42344 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42345 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42346 File
    42347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42348 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42349 s.vertex_colors = self.vertex_colors(report_stats) 
    42350 File
    42351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42352 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42353 values, outside = self.volume_values() 
    42354 File
    42355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42356 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42357 return self.offset_values(v, n, tf) 
    42358 File
    42359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42360 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42361 values, outside = self.vertex_values(v, xf) 
    42362 File
    42363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42364 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42365 out_of_bounds_list = True) 
    42366 File
    42367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42368 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42369 subregion, step) 
    42370 File
    42371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42372 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42373 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42374 File
    42375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42376 packages/chimerax/map/volume.py", line 1243, in
    42377 matrix_indices_to_xyz_transform 
    42378 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42379 File
    42380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42381 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42382 r = self.subregion(step, subregion) 
    42383 File
    42384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42385 packages/chimerax/map/volume.py", line 1558, in subregion 
    42386 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42387 AttributeError: 'NoneType' object has no attribute 'size' 
    42388  
    42389 AttributeError: 'NoneType' object has no attribute 'size' 
    42390  
    42391 File
    42392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42393 packages/chimerax/map/volume.py", line 1558, in subregion 
    42394 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42395  
    42396 See log for complete Python traceback. 
    42397  
    42398 Traceback (most recent call last): 
    42399 File
    42400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42401 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42402 drew = self.draw_new_frame() 
    42403 File
    42404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42405 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42406 surface.update_clip_caps(view) 
    42407 File
    42408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42409 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42410 subdivision = settings.clipping_cap_subdivision) 
    42411 File
    42412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42413 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42414 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42415 File
    42416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42417 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42418 cm.set_geometry(varray, narray, tarray) 
    42419 File
    42420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42421 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42422 arv() 
    42423 File
    42424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42425 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42426 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42427 File
    42428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42429 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42430 s.vertex_colors = self.vertex_colors(report_stats) 
    42431 File
    42432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42433 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42434 values, outside = self.volume_values() 
    42435 File
    42436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42437 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42438 return self.offset_values(v, n, tf) 
    42439 File
    42440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42441 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42442 values, outside = self.vertex_values(v, xf) 
    42443 File
    42444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42445 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42446 out_of_bounds_list = True) 
    42447 File
    42448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42449 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42450 subregion, step) 
    42451 File
    42452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42453 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42454 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42455 File
    42456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42457 packages/chimerax/map/volume.py", line 1243, in
    42458 matrix_indices_to_xyz_transform 
    42459 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42460 File
    42461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42462 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42463 r = self.subregion(step, subregion) 
    42464 File
    42465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42466 packages/chimerax/map/volume.py", line 1558, in subregion 
    42467 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42468 AttributeError: 'NoneType' object has no attribute 'size' 
    42469  
    42470 AttributeError: 'NoneType' object has no attribute 'size' 
    42471  
    42472 File
    42473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42474 packages/chimerax/map/volume.py", line 1558, in subregion 
    42475 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42476  
    42477 See log for complete Python traceback. 
    42478  
    42479 Traceback (most recent call last): 
    42480 File
    42481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42482 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42483 drew = self.draw_new_frame() 
    42484 File
    42485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42486 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42487 surface.update_clip_caps(view) 
    42488 File
    42489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42490 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42491 subdivision = settings.clipping_cap_subdivision) 
    42492 File
    42493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42494 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42495 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42496 File
    42497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42498 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42499 cm.set_geometry(varray, narray, tarray) 
    42500 File
    42501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42502 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42503 arv() 
    42504 File
    42505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42506 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42507 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42508 File
    42509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42510 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42511 s.vertex_colors = self.vertex_colors(report_stats) 
    42512 File
    42513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42514 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42515 values, outside = self.volume_values() 
    42516 File
    42517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42518 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42519 return self.offset_values(v, n, tf) 
    42520 File
    42521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42522 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42523 values, outside = self.vertex_values(v, xf) 
    42524 File
    42525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42526 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42527 out_of_bounds_list = True) 
    42528 File
    42529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42530 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42531 subregion, step) 
    42532 File
    42533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42534 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42535 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42536 File
    42537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42538 packages/chimerax/map/volume.py", line 1243, in
    42539 matrix_indices_to_xyz_transform 
    42540 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42541 File
    42542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42543 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42544 r = self.subregion(step, subregion) 
    42545 File
    42546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42547 packages/chimerax/map/volume.py", line 1558, in subregion 
    42548 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42549 AttributeError: 'NoneType' object has no attribute 'size' 
    42550  
    42551 AttributeError: 'NoneType' object has no attribute 'size' 
    42552  
    42553 File
    42554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42555 packages/chimerax/map/volume.py", line 1558, in subregion 
    42556 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42557  
    42558 See log for complete Python traceback. 
    42559  
    42560 Traceback (most recent call last): 
    42561 File
    42562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42563 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42564 drew = self.draw_new_frame() 
    42565 File
    42566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42567 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42568 surface.update_clip_caps(view) 
    42569 File
    42570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42571 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42572 subdivision = settings.clipping_cap_subdivision) 
    42573 File
    42574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42575 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42576 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42577 File
    42578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42579 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42580 cm.set_geometry(varray, narray, tarray) 
    42581 File
    42582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42583 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42584 arv() 
    42585 File
    42586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42587 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42588 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42589 File
    42590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42591 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42592 s.vertex_colors = self.vertex_colors(report_stats) 
    42593 File
    42594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42595 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42596 values, outside = self.volume_values() 
    42597 File
    42598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42599 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42600 return self.offset_values(v, n, tf) 
    42601 File
    42602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42603 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42604 values, outside = self.vertex_values(v, xf) 
    42605 File
    42606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42607 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42608 out_of_bounds_list = True) 
    42609 File
    42610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42611 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42612 subregion, step) 
    42613 File
    42614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42615 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42616 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42617 File
    42618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42619 packages/chimerax/map/volume.py", line 1243, in
    42620 matrix_indices_to_xyz_transform 
    42621 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42622 File
    42623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42624 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42625 r = self.subregion(step, subregion) 
    42626 File
    42627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42628 packages/chimerax/map/volume.py", line 1558, in subregion 
    42629 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42630 AttributeError: 'NoneType' object has no attribute 'size' 
    42631  
    42632 AttributeError: 'NoneType' object has no attribute 'size' 
    42633  
    42634 File
    42635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42636 packages/chimerax/map/volume.py", line 1558, in subregion 
    42637 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42638  
    42639 See log for complete Python traceback. 
    42640  
    42641 Traceback (most recent call last): 
    42642 File
    42643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42644 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42645 drew = self.draw_new_frame() 
    42646 File
    42647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42648 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42649 surface.update_clip_caps(view) 
    42650 File
    42651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42652 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42653 subdivision = settings.clipping_cap_subdivision) 
    42654 File
    42655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42656 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42657 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42658 File
    42659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42660 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42661 cm.set_geometry(varray, narray, tarray) 
    42662 File
    42663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42664 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42665 arv() 
    42666 File
    42667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42668 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42669 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42670 File
    42671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42672 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42673 s.vertex_colors = self.vertex_colors(report_stats) 
    42674 File
    42675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42676 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42677 values, outside = self.volume_values() 
    42678 File
    42679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42680 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42681 return self.offset_values(v, n, tf) 
    42682 File
    42683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42684 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42685 values, outside = self.vertex_values(v, xf) 
    42686 File
    42687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42688 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42689 out_of_bounds_list = True) 
    42690 File
    42691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42692 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42693 subregion, step) 
    42694 File
    42695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42696 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42697 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42698 File
    42699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42700 packages/chimerax/map/volume.py", line 1243, in
    42701 matrix_indices_to_xyz_transform 
    42702 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42703 File
    42704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42705 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42706 r = self.subregion(step, subregion) 
    42707 File
    42708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42709 packages/chimerax/map/volume.py", line 1558, in subregion 
    42710 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42711 AttributeError: 'NoneType' object has no attribute 'size' 
    42712  
    42713 AttributeError: 'NoneType' object has no attribute 'size' 
    42714  
    42715 File
    42716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42717 packages/chimerax/map/volume.py", line 1558, in subregion 
    42718 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42719  
    42720 See log for complete Python traceback. 
    42721  
    42722 Traceback (most recent call last): 
    42723 File
    42724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42725 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42726 drew = self.draw_new_frame() 
    42727 File
    42728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42729 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42730 surface.update_clip_caps(view) 
    42731 File
    42732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42733 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42734 subdivision = settings.clipping_cap_subdivision) 
    42735 File
    42736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42737 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42738 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42739 File
    42740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42741 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42742 cm.set_geometry(varray, narray, tarray) 
    42743 File
    42744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42745 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42746 arv() 
    42747 File
    42748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42749 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42750 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42751 File
    42752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42753 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42754 s.vertex_colors = self.vertex_colors(report_stats) 
    42755 File
    42756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42757 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42758 values, outside = self.volume_values() 
    42759 File
    42760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42761 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42762 return self.offset_values(v, n, tf) 
    42763 File
    42764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42765 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42766 values, outside = self.vertex_values(v, xf) 
    42767 File
    42768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42769 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42770 out_of_bounds_list = True) 
    42771 File
    42772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42773 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42774 subregion, step) 
    42775 File
    42776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42777 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42778 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42779 File
    42780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42781 packages/chimerax/map/volume.py", line 1243, in
    42782 matrix_indices_to_xyz_transform 
    42783 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42784 File
    42785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42786 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42787 r = self.subregion(step, subregion) 
    42788 File
    42789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42790 packages/chimerax/map/volume.py", line 1558, in subregion 
    42791 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42792 AttributeError: 'NoneType' object has no attribute 'size' 
    42793  
    42794 AttributeError: 'NoneType' object has no attribute 'size' 
    42795  
    42796 File
    42797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42798 packages/chimerax/map/volume.py", line 1558, in subregion 
    42799 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42800  
    42801 See log for complete Python traceback. 
    42802  
    42803 Traceback (most recent call last): 
    42804 File
    42805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42806 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42807 drew = self.draw_new_frame() 
    42808 File
    42809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42810 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42811 surface.update_clip_caps(view) 
    42812 File
    42813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42814 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42815 subdivision = settings.clipping_cap_subdivision) 
    42816 File
    42817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42818 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42819 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42820 File
    42821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42822 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42823 cm.set_geometry(varray, narray, tarray) 
    42824 File
    42825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42826 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42827 arv() 
    42828 File
    42829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42830 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42831 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42832 File
    42833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42834 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42835 s.vertex_colors = self.vertex_colors(report_stats) 
    42836 File
    42837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42838 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42839 values, outside = self.volume_values() 
    42840 File
    42841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42842 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42843 return self.offset_values(v, n, tf) 
    42844 File
    42845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42846 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42847 values, outside = self.vertex_values(v, xf) 
    42848 File
    42849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42850 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42851 out_of_bounds_list = True) 
    42852 File
    42853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42854 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42855 subregion, step) 
    42856 File
    42857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42858 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42859 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42860 File
    42861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42862 packages/chimerax/map/volume.py", line 1243, in
    42863 matrix_indices_to_xyz_transform 
    42864 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42865 File
    42866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42867 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42868 r = self.subregion(step, subregion) 
    42869 File
    42870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42871 packages/chimerax/map/volume.py", line 1558, in subregion 
    42872 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42873 AttributeError: 'NoneType' object has no attribute 'size' 
    42874  
    42875 AttributeError: 'NoneType' object has no attribute 'size' 
    42876  
    42877 File
    42878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42879 packages/chimerax/map/volume.py", line 1558, in subregion 
    42880 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42881  
    42882 See log for complete Python traceback. 
    42883  
    42884 Traceback (most recent call last): 
    42885 File
    42886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42887 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42888 drew = self.draw_new_frame() 
    42889 File
    42890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42891 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42892 surface.update_clip_caps(view) 
    42893 File
    42894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42895 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42896 subdivision = settings.clipping_cap_subdivision) 
    42897 File
    42898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42899 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42900 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42901 File
    42902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42903 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42904 cm.set_geometry(varray, narray, tarray) 
    42905 File
    42906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42907 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42908 arv() 
    42909 File
    42910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42911 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42912 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42913 File
    42914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42915 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42916 s.vertex_colors = self.vertex_colors(report_stats) 
    42917 File
    42918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42919 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    42920 values, outside = self.volume_values() 
    42921 File
    42922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42923 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    42924 return self.offset_values(v, n, tf) 
    42925 File
    42926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42927 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    42928 values, outside = self.vertex_values(v, xf) 
    42929 File
    42930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42931 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    42932 out_of_bounds_list = True) 
    42933 File
    42934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42935 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    42936 subregion, step) 
    42937 File
    42938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42939 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    42940 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    42941 File
    42942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42943 packages/chimerax/map/volume.py", line 1243, in
    42944 matrix_indices_to_xyz_transform 
    42945 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    42946 File
    42947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42948 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    42949 r = self.subregion(step, subregion) 
    42950 File
    42951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42952 packages/chimerax/map/volume.py", line 1558, in subregion 
    42953 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42954 AttributeError: 'NoneType' object has no attribute 'size' 
    42955  
    42956 AttributeError: 'NoneType' object has no attribute 'size' 
    42957  
    42958 File
    42959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42960 packages/chimerax/map/volume.py", line 1558, in subregion 
    42961 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    42962  
    42963 See log for complete Python traceback. 
    42964  
    42965 Traceback (most recent call last): 
    42966 File
    42967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42968 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    42969 drew = self.draw_new_frame() 
    42970 File
    42971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42972 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    42973 surface.update_clip_caps(view) 
    42974 File
    42975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42976 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    42977 subdivision = settings.clipping_cap_subdivision) 
    42978 File
    42979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42980 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    42981 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    42982 File
    42983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42984 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    42985 cm.set_geometry(varray, narray, tarray) 
    42986 File
    42987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42988 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    42989 arv() 
    42990 File
    42991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42992 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    42993 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    42994 File
    42995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    42996 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    42997 s.vertex_colors = self.vertex_colors(report_stats) 
    42998 File
    42999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43000 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43001 values, outside = self.volume_values() 
    43002 File
    43003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43004 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43005 return self.offset_values(v, n, tf) 
    43006 File
    43007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43008 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43009 values, outside = self.vertex_values(v, xf) 
    43010 File
    43011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43012 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43013 out_of_bounds_list = True) 
    43014 File
    43015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43016 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43017 subregion, step) 
    43018 File
    43019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43020 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43021 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43022 File
    43023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43024 packages/chimerax/map/volume.py", line 1243, in
    43025 matrix_indices_to_xyz_transform 
    43026 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43027 File
    43028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43029 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43030 r = self.subregion(step, subregion) 
    43031 File
    43032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43033 packages/chimerax/map/volume.py", line 1558, in subregion 
    43034 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43035 AttributeError: 'NoneType' object has no attribute 'size' 
    43036  
    43037 AttributeError: 'NoneType' object has no attribute 'size' 
    43038  
    43039 File
    43040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43041 packages/chimerax/map/volume.py", line 1558, in subregion 
    43042 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43043  
    43044 See log for complete Python traceback. 
    43045  
    43046 Traceback (most recent call last): 
    43047 File
    43048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43049 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43050 drew = self.draw_new_frame() 
    43051 File
    43052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43053 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43054 surface.update_clip_caps(view) 
    43055 File
    43056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43057 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43058 subdivision = settings.clipping_cap_subdivision) 
    43059 File
    43060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43061 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43062 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43063 File
    43064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43065 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43066 cm.set_geometry(varray, narray, tarray) 
    43067 File
    43068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43069 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43070 arv() 
    43071 File
    43072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43073 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43074 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43075 File
    43076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43077 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43078 s.vertex_colors = self.vertex_colors(report_stats) 
    43079 File
    43080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43081 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43082 values, outside = self.volume_values() 
    43083 File
    43084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43085 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43086 return self.offset_values(v, n, tf) 
    43087 File
    43088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43089 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43090 values, outside = self.vertex_values(v, xf) 
    43091 File
    43092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43093 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43094 out_of_bounds_list = True) 
    43095 File
    43096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43097 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43098 subregion, step) 
    43099 File
    43100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43101 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43102 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43103 File
    43104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43105 packages/chimerax/map/volume.py", line 1243, in
    43106 matrix_indices_to_xyz_transform 
    43107 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43108 File
    43109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43110 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43111 r = self.subregion(step, subregion) 
    43112 File
    43113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43114 packages/chimerax/map/volume.py", line 1558, in subregion 
    43115 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43116 AttributeError: 'NoneType' object has no attribute 'size' 
    43117  
    43118 AttributeError: 'NoneType' object has no attribute 'size' 
    43119  
    43120 File
    43121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43122 packages/chimerax/map/volume.py", line 1558, in subregion 
    43123 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43124  
    43125 See log for complete Python traceback. 
    43126  
    43127 Traceback (most recent call last): 
    43128 File
    43129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43130 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43131 drew = self.draw_new_frame() 
    43132 File
    43133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43134 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43135 surface.update_clip_caps(view) 
    43136 File
    43137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43138 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43139 subdivision = settings.clipping_cap_subdivision) 
    43140 File
    43141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43142 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43143 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43144 File
    43145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43146 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43147 cm.set_geometry(varray, narray, tarray) 
    43148 File
    43149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43150 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43151 arv() 
    43152 File
    43153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43154 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43155 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43156 File
    43157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43158 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43159 s.vertex_colors = self.vertex_colors(report_stats) 
    43160 File
    43161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43162 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43163 values, outside = self.volume_values() 
    43164 File
    43165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43166 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43167 return self.offset_values(v, n, tf) 
    43168 File
    43169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43170 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43171 values, outside = self.vertex_values(v, xf) 
    43172 File
    43173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43174 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43175 out_of_bounds_list = True) 
    43176 File
    43177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43178 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43179 subregion, step) 
    43180 File
    43181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43182 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43183 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43184 File
    43185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43186 packages/chimerax/map/volume.py", line 1243, in
    43187 matrix_indices_to_xyz_transform 
    43188 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43189 File
    43190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43191 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43192 r = self.subregion(step, subregion) 
    43193 File
    43194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43195 packages/chimerax/map/volume.py", line 1558, in subregion 
    43196 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43197 AttributeError: 'NoneType' object has no attribute 'size' 
    43198  
    43199 AttributeError: 'NoneType' object has no attribute 'size' 
    43200  
    43201 File
    43202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43203 packages/chimerax/map/volume.py", line 1558, in subregion 
    43204 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43205  
    43206 See log for complete Python traceback. 
    43207  
    43208 Traceback (most recent call last): 
    43209 File
    43210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43211 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43212 drew = self.draw_new_frame() 
    43213 File
    43214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43215 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43216 surface.update_clip_caps(view) 
    43217 File
    43218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43219 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43220 subdivision = settings.clipping_cap_subdivision) 
    43221 File
    43222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43223 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43224 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43225 File
    43226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43227 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43228 cm.set_geometry(varray, narray, tarray) 
    43229 File
    43230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43231 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43232 arv() 
    43233 File
    43234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43235 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43236 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43237 File
    43238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43239 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43240 s.vertex_colors = self.vertex_colors(report_stats) 
    43241 File
    43242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43243 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43244 values, outside = self.volume_values() 
    43245 File
    43246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43247 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43248 return self.offset_values(v, n, tf) 
    43249 File
    43250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43251 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43252 values, outside = self.vertex_values(v, xf) 
    43253 File
    43254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43255 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43256 out_of_bounds_list = True) 
    43257 File
    43258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43259 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43260 subregion, step) 
    43261 File
    43262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43263 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43264 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43265 File
    43266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43267 packages/chimerax/map/volume.py", line 1243, in
    43268 matrix_indices_to_xyz_transform 
    43269 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43270 File
    43271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43272 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43273 r = self.subregion(step, subregion) 
    43274 File
    43275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43276 packages/chimerax/map/volume.py", line 1558, in subregion 
    43277 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43278 AttributeError: 'NoneType' object has no attribute 'size' 
    43279  
    43280 AttributeError: 'NoneType' object has no attribute 'size' 
    43281  
    43282 File
    43283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43284 packages/chimerax/map/volume.py", line 1558, in subregion 
    43285 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43286  
    43287 See log for complete Python traceback. 
    43288  
    43289 Traceback (most recent call last): 
    43290 File
    43291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43292 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43293 drew = self.draw_new_frame() 
    43294 File
    43295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43296 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43297 surface.update_clip_caps(view) 
    43298 File
    43299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43300 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43301 subdivision = settings.clipping_cap_subdivision) 
    43302 File
    43303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43304 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43305 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43306 File
    43307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43308 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43309 cm.set_geometry(varray, narray, tarray) 
    43310 File
    43311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43312 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43313 arv() 
    43314 File
    43315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43316 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43317 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43318 File
    43319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43320 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43321 s.vertex_colors = self.vertex_colors(report_stats) 
    43322 File
    43323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43324 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43325 values, outside = self.volume_values() 
    43326 File
    43327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43328 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43329 return self.offset_values(v, n, tf) 
    43330 File
    43331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43332 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43333 values, outside = self.vertex_values(v, xf) 
    43334 File
    43335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43336 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43337 out_of_bounds_list = True) 
    43338 File
    43339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43340 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43341 subregion, step) 
    43342 File
    43343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43344 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43345 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43346 File
    43347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43348 packages/chimerax/map/volume.py", line 1243, in
    43349 matrix_indices_to_xyz_transform 
    43350 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43351 File
    43352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43353 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43354 r = self.subregion(step, subregion) 
    43355 File
    43356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43357 packages/chimerax/map/volume.py", line 1558, in subregion 
    43358 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43359 AttributeError: 'NoneType' object has no attribute 'size' 
    43360  
    43361 AttributeError: 'NoneType' object has no attribute 'size' 
    43362  
    43363 File
    43364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43365 packages/chimerax/map/volume.py", line 1558, in subregion 
    43366 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43367  
    43368 See log for complete Python traceback. 
    43369  
    43370 Traceback (most recent call last): 
    43371 File
    43372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43373 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43374 drew = self.draw_new_frame() 
    43375 File
    43376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43377 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43378 surface.update_clip_caps(view) 
    43379 File
    43380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43381 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43382 subdivision = settings.clipping_cap_subdivision) 
    43383 File
    43384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43385 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43386 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43387 File
    43388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43389 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43390 cm.set_geometry(varray, narray, tarray) 
    43391 File
    43392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43393 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43394 arv() 
    43395 File
    43396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43397 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43398 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43399 File
    43400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43401 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43402 s.vertex_colors = self.vertex_colors(report_stats) 
    43403 File
    43404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43405 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43406 values, outside = self.volume_values() 
    43407 File
    43408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43409 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43410 return self.offset_values(v, n, tf) 
    43411 File
    43412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43413 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43414 values, outside = self.vertex_values(v, xf) 
    43415 File
    43416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43417 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43418 out_of_bounds_list = True) 
    43419 File
    43420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43421 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43422 subregion, step) 
    43423 File
    43424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43425 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43426 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43427 File
    43428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43429 packages/chimerax/map/volume.py", line 1243, in
    43430 matrix_indices_to_xyz_transform 
    43431 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43432 File
    43433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43434 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43435 r = self.subregion(step, subregion) 
    43436 File
    43437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43438 packages/chimerax/map/volume.py", line 1558, in subregion 
    43439 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43440 AttributeError: 'NoneType' object has no attribute 'size' 
    43441  
    43442 AttributeError: 'NoneType' object has no attribute 'size' 
    43443  
    43444 File
    43445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43446 packages/chimerax/map/volume.py", line 1558, in subregion 
    43447 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43448  
    43449 See log for complete Python traceback. 
    43450  
    43451 Traceback (most recent call last): 
    43452 File
    43453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43454 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43455 drew = self.draw_new_frame() 
    43456 File
    43457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43458 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43459 surface.update_clip_caps(view) 
    43460 File
    43461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43462 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43463 subdivision = settings.clipping_cap_subdivision) 
    43464 File
    43465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43466 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43467 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43468 File
    43469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43470 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43471 cm.set_geometry(varray, narray, tarray) 
    43472 File
    43473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43474 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43475 arv() 
    43476 File
    43477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43478 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43479 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43480 File
    43481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43482 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43483 s.vertex_colors = self.vertex_colors(report_stats) 
    43484 File
    43485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43486 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43487 values, outside = self.volume_values() 
    43488 File
    43489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43490 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43491 return self.offset_values(v, n, tf) 
    43492 File
    43493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43494 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43495 values, outside = self.vertex_values(v, xf) 
    43496 File
    43497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43498 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43499 out_of_bounds_list = True) 
    43500 File
    43501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43502 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43503 subregion, step) 
    43504 File
    43505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43506 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43507 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43508 File
    43509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43510 packages/chimerax/map/volume.py", line 1243, in
    43511 matrix_indices_to_xyz_transform 
    43512 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43513 File
    43514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43515 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43516 r = self.subregion(step, subregion) 
    43517 File
    43518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43519 packages/chimerax/map/volume.py", line 1558, in subregion 
    43520 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43521 AttributeError: 'NoneType' object has no attribute 'size' 
    43522  
    43523 AttributeError: 'NoneType' object has no attribute 'size' 
    43524  
    43525 File
    43526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43527 packages/chimerax/map/volume.py", line 1558, in subregion 
    43528 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43529  
    43530 See log for complete Python traceback. 
    43531  
    43532 Traceback (most recent call last): 
    43533 File
    43534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43535 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43536 drew = self.draw_new_frame() 
    43537 File
    43538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43539 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43540 surface.update_clip_caps(view) 
    43541 File
    43542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43543 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43544 subdivision = settings.clipping_cap_subdivision) 
    43545 File
    43546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43547 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43548 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43549 File
    43550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43551 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43552 cm.set_geometry(varray, narray, tarray) 
    43553 File
    43554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43555 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43556 arv() 
    43557 File
    43558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43559 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43560 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43561 File
    43562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43563 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43564 s.vertex_colors = self.vertex_colors(report_stats) 
    43565 File
    43566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43567 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43568 values, outside = self.volume_values() 
    43569 File
    43570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43571 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43572 return self.offset_values(v, n, tf) 
    43573 File
    43574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43575 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43576 values, outside = self.vertex_values(v, xf) 
    43577 File
    43578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43579 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43580 out_of_bounds_list = True) 
    43581 File
    43582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43583 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43584 subregion, step) 
    43585 File
    43586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43587 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43588 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43589 File
    43590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43591 packages/chimerax/map/volume.py", line 1243, in
    43592 matrix_indices_to_xyz_transform 
    43593 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43594 File
    43595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43596 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43597 r = self.subregion(step, subregion) 
    43598 File
    43599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43600 packages/chimerax/map/volume.py", line 1558, in subregion 
    43601 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43602 AttributeError: 'NoneType' object has no attribute 'size' 
    43603  
    43604 AttributeError: 'NoneType' object has no attribute 'size' 
    43605  
    43606 File
    43607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43608 packages/chimerax/map/volume.py", line 1558, in subregion 
    43609 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43610  
    43611 See log for complete Python traceback. 
    43612  
    43613 Traceback (most recent call last): 
    43614 File
    43615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43616 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43617 drew = self.draw_new_frame() 
    43618 File
    43619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43620 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43621 surface.update_clip_caps(view) 
    43622 File
    43623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43624 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43625 subdivision = settings.clipping_cap_subdivision) 
    43626 File
    43627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43628 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43629 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43630 File
    43631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43632 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43633 cm.set_geometry(varray, narray, tarray) 
    43634 File
    43635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43636 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43637 arv() 
    43638 File
    43639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43640 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43641 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43642 File
    43643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43644 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43645 s.vertex_colors = self.vertex_colors(report_stats) 
    43646 File
    43647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43648 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43649 values, outside = self.volume_values() 
    43650 File
    43651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43652 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43653 return self.offset_values(v, n, tf) 
    43654 File
    43655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43656 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43657 values, outside = self.vertex_values(v, xf) 
    43658 File
    43659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43660 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43661 out_of_bounds_list = True) 
    43662 File
    43663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43664 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43665 subregion, step) 
    43666 File
    43667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43668 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43669 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43670 File
    43671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43672 packages/chimerax/map/volume.py", line 1243, in
    43673 matrix_indices_to_xyz_transform 
    43674 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43675 File
    43676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43677 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43678 r = self.subregion(step, subregion) 
    43679 File
    43680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43681 packages/chimerax/map/volume.py", line 1558, in subregion 
    43682 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43683 AttributeError: 'NoneType' object has no attribute 'size' 
    43684  
    43685 AttributeError: 'NoneType' object has no attribute 'size' 
    43686  
    43687 File
    43688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43689 packages/chimerax/map/volume.py", line 1558, in subregion 
    43690 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43691  
    43692 See log for complete Python traceback. 
    43693  
    43694 Traceback (most recent call last): 
    43695 File
    43696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43697 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43698 drew = self.draw_new_frame() 
    43699 File
    43700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43701 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43702 surface.update_clip_caps(view) 
    43703 File
    43704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43705 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43706 subdivision = settings.clipping_cap_subdivision) 
    43707 File
    43708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43709 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43710 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43711 File
    43712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43713 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43714 cm.set_geometry(varray, narray, tarray) 
    43715 File
    43716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43717 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43718 arv() 
    43719 File
    43720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43721 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43722 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43723 File
    43724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43725 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43726 s.vertex_colors = self.vertex_colors(report_stats) 
    43727 File
    43728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43729 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43730 values, outside = self.volume_values() 
    43731 File
    43732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43733 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43734 return self.offset_values(v, n, tf) 
    43735 File
    43736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43737 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43738 values, outside = self.vertex_values(v, xf) 
    43739 File
    43740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43741 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43742 out_of_bounds_list = True) 
    43743 File
    43744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43745 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43746 subregion, step) 
    43747 File
    43748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43749 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43750 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43751 File
    43752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43753 packages/chimerax/map/volume.py", line 1243, in
    43754 matrix_indices_to_xyz_transform 
    43755 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43756 File
    43757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43758 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43759 r = self.subregion(step, subregion) 
    43760 File
    43761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43762 packages/chimerax/map/volume.py", line 1558, in subregion 
    43763 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43764 AttributeError: 'NoneType' object has no attribute 'size' 
    43765  
    43766 AttributeError: 'NoneType' object has no attribute 'size' 
    43767  
    43768 File
    43769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43770 packages/chimerax/map/volume.py", line 1558, in subregion 
    43771 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43772  
    43773 See log for complete Python traceback. 
    43774  
    43775 Traceback (most recent call last): 
    43776 File
    43777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43778 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43779 drew = self.draw_new_frame() 
    43780 File
    43781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43782 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43783 surface.update_clip_caps(view) 
    43784 File
    43785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43786 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43787 subdivision = settings.clipping_cap_subdivision) 
    43788 File
    43789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43790 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43791 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43792 File
    43793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43794 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43795 cm.set_geometry(varray, narray, tarray) 
    43796 File
    43797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43798 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43799 arv() 
    43800 File
    43801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43802 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43803 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43804 File
    43805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43806 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43807 s.vertex_colors = self.vertex_colors(report_stats) 
    43808 File
    43809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43810 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43811 values, outside = self.volume_values() 
    43812 File
    43813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43814 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43815 return self.offset_values(v, n, tf) 
    43816 File
    43817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43818 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43819 values, outside = self.vertex_values(v, xf) 
    43820 File
    43821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43822 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43823 out_of_bounds_list = True) 
    43824 File
    43825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43826 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43827 subregion, step) 
    43828 File
    43829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43830 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43831 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43832 File
    43833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43834 packages/chimerax/map/volume.py", line 1243, in
    43835 matrix_indices_to_xyz_transform 
    43836 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43837 File
    43838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43839 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43840 r = self.subregion(step, subregion) 
    43841 File
    43842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43843 packages/chimerax/map/volume.py", line 1558, in subregion 
    43844 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43845 AttributeError: 'NoneType' object has no attribute 'size' 
    43846  
    43847 AttributeError: 'NoneType' object has no attribute 'size' 
    43848  
    43849 File
    43850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43851 packages/chimerax/map/volume.py", line 1558, in subregion 
    43852 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43853  
    43854 See log for complete Python traceback. 
    43855  
    43856 Traceback (most recent call last): 
    43857 File
    43858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43859 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43860 drew = self.draw_new_frame() 
    43861 File
    43862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43863 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43864 surface.update_clip_caps(view) 
    43865 File
    43866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43867 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43868 subdivision = settings.clipping_cap_subdivision) 
    43869 File
    43870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43871 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43872 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43873 File
    43874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43875 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43876 cm.set_geometry(varray, narray, tarray) 
    43877 File
    43878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43879 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43880 arv() 
    43881 File
    43882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43883 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43884 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43885 File
    43886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43887 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43888 s.vertex_colors = self.vertex_colors(report_stats) 
    43889 File
    43890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43891 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43892 values, outside = self.volume_values() 
    43893 File
    43894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43895 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43896 return self.offset_values(v, n, tf) 
    43897 File
    43898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43899 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43900 values, outside = self.vertex_values(v, xf) 
    43901 File
    43902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43903 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43904 out_of_bounds_list = True) 
    43905 File
    43906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43907 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43908 subregion, step) 
    43909 File
    43910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43911 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43912 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43913 File
    43914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43915 packages/chimerax/map/volume.py", line 1243, in
    43916 matrix_indices_to_xyz_transform 
    43917 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43918 File
    43919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43920 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    43921 r = self.subregion(step, subregion) 
    43922 File
    43923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43924 packages/chimerax/map/volume.py", line 1558, in subregion 
    43925 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43926 AttributeError: 'NoneType' object has no attribute 'size' 
    43927  
    43928 AttributeError: 'NoneType' object has no attribute 'size' 
    43929  
    43930 File
    43931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43932 packages/chimerax/map/volume.py", line 1558, in subregion 
    43933 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    43934  
    43935 See log for complete Python traceback. 
    43936  
    43937 Traceback (most recent call last): 
    43938 File
    43939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43940 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    43941 drew = self.draw_new_frame() 
    43942 File
    43943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43944 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    43945 surface.update_clip_caps(view) 
    43946 File
    43947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43948 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    43949 subdivision = settings.clipping_cap_subdivision) 
    43950 File
    43951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43952 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    43953 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    43954 File
    43955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43956 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    43957 cm.set_geometry(varray, narray, tarray) 
    43958 File
    43959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43960 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    43961 arv() 
    43962 File
    43963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43964 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    43965 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    43966 File
    43967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43968 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    43969 s.vertex_colors = self.vertex_colors(report_stats) 
    43970 File
    43971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43972 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    43973 values, outside = self.volume_values() 
    43974 File
    43975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43976 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    43977 return self.offset_values(v, n, tf) 
    43978 File
    43979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43980 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    43981 values, outside = self.vertex_values(v, xf) 
    43982 File
    43983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43984 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    43985 out_of_bounds_list = True) 
    43986 File
    43987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43988 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    43989 subregion, step) 
    43990 File
    43991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43992 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    43993 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    43994 File
    43995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    43996 packages/chimerax/map/volume.py", line 1243, in
    43997 matrix_indices_to_xyz_transform 
    43998 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    43999 File
    44000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44001 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44002 r = self.subregion(step, subregion) 
    44003 File
    44004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44005 packages/chimerax/map/volume.py", line 1558, in subregion 
    44006 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44007 AttributeError: 'NoneType' object has no attribute 'size' 
    44008  
    44009 AttributeError: 'NoneType' object has no attribute 'size' 
    44010  
    44011 File
    44012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44013 packages/chimerax/map/volume.py", line 1558, in subregion 
    44014 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44015  
    44016 See log for complete Python traceback. 
    44017  
    44018 Traceback (most recent call last): 
    44019 File
    44020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44021 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44022 drew = self.draw_new_frame() 
    44023 File
    44024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44025 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44026 surface.update_clip_caps(view) 
    44027 File
    44028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44029 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44030 subdivision = settings.clipping_cap_subdivision) 
    44031 File
    44032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44033 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44034 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44035 File
    44036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44037 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44038 cm.set_geometry(varray, narray, tarray) 
    44039 File
    44040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44041 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44042 arv() 
    44043 File
    44044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44045 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44046 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44047 File
    44048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44049 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44050 s.vertex_colors = self.vertex_colors(report_stats) 
    44051 File
    44052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44053 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44054 values, outside = self.volume_values() 
    44055 File
    44056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44057 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44058 return self.offset_values(v, n, tf) 
    44059 File
    44060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44061 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44062 values, outside = self.vertex_values(v, xf) 
    44063 File
    44064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44065 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44066 out_of_bounds_list = True) 
    44067 File
    44068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44069 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44070 subregion, step) 
    44071 File
    44072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44073 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44074 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44075 File
    44076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44077 packages/chimerax/map/volume.py", line 1243, in
    44078 matrix_indices_to_xyz_transform 
    44079 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44080 File
    44081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44082 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44083 r = self.subregion(step, subregion) 
    44084 File
    44085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44086 packages/chimerax/map/volume.py", line 1558, in subregion 
    44087 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44088 AttributeError: 'NoneType' object has no attribute 'size' 
    44089  
    44090 AttributeError: 'NoneType' object has no attribute 'size' 
    44091  
    44092 File
    44093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44094 packages/chimerax/map/volume.py", line 1558, in subregion 
    44095 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44096  
    44097 See log for complete Python traceback. 
    44098  
    44099 Traceback (most recent call last): 
    44100 File
    44101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44102 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44103 drew = self.draw_new_frame() 
    44104 File
    44105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44106 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44107 surface.update_clip_caps(view) 
    44108 File
    44109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44110 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44111 subdivision = settings.clipping_cap_subdivision) 
    44112 File
    44113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44114 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44115 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44116 File
    44117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44118 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44119 cm.set_geometry(varray, narray, tarray) 
    44120 File
    44121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44122 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44123 arv() 
    44124 File
    44125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44126 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44127 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44128 File
    44129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44130 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44131 s.vertex_colors = self.vertex_colors(report_stats) 
    44132 File
    44133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44134 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44135 values, outside = self.volume_values() 
    44136 File
    44137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44138 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44139 return self.offset_values(v, n, tf) 
    44140 File
    44141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44142 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44143 values, outside = self.vertex_values(v, xf) 
    44144 File
    44145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44146 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44147 out_of_bounds_list = True) 
    44148 File
    44149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44150 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44151 subregion, step) 
    44152 File
    44153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44154 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44155 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44156 File
    44157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44158 packages/chimerax/map/volume.py", line 1243, in
    44159 matrix_indices_to_xyz_transform 
    44160 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44161 File
    44162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44163 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44164 r = self.subregion(step, subregion) 
    44165 File
    44166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44167 packages/chimerax/map/volume.py", line 1558, in subregion 
    44168 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44169 AttributeError: 'NoneType' object has no attribute 'size' 
    44170  
    44171 AttributeError: 'NoneType' object has no attribute 'size' 
    44172  
    44173 File
    44174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44175 packages/chimerax/map/volume.py", line 1558, in subregion 
    44176 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44177  
    44178 See log for complete Python traceback. 
    44179  
    44180 Traceback (most recent call last): 
    44181 File
    44182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44183 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44184 drew = self.draw_new_frame() 
    44185 File
    44186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44187 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44188 surface.update_clip_caps(view) 
    44189 File
    44190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44191 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44192 subdivision = settings.clipping_cap_subdivision) 
    44193 File
    44194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44195 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44196 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44197 File
    44198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44199 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44200 cm.set_geometry(varray, narray, tarray) 
    44201 File
    44202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44203 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44204 arv() 
    44205 File
    44206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44207 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44208 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44209 File
    44210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44211 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44212 s.vertex_colors = self.vertex_colors(report_stats) 
    44213 File
    44214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44215 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44216 values, outside = self.volume_values() 
    44217 File
    44218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44219 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44220 return self.offset_values(v, n, tf) 
    44221 File
    44222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44223 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44224 values, outside = self.vertex_values(v, xf) 
    44225 File
    44226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44227 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44228 out_of_bounds_list = True) 
    44229 File
    44230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44231 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44232 subregion, step) 
    44233 File
    44234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44235 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44236 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44237 File
    44238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44239 packages/chimerax/map/volume.py", line 1243, in
    44240 matrix_indices_to_xyz_transform 
    44241 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44242 File
    44243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44244 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44245 r = self.subregion(step, subregion) 
    44246 File
    44247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44248 packages/chimerax/map/volume.py", line 1558, in subregion 
    44249 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44250 AttributeError: 'NoneType' object has no attribute 'size' 
    44251  
    44252 AttributeError: 'NoneType' object has no attribute 'size' 
    44253  
    44254 File
    44255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44256 packages/chimerax/map/volume.py", line 1558, in subregion 
    44257 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44258  
    44259 See log for complete Python traceback. 
    44260  
    44261 Traceback (most recent call last): 
    44262 File
    44263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44264 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44265 drew = self.draw_new_frame() 
    44266 File
    44267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44268 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44269 surface.update_clip_caps(view) 
    44270 File
    44271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44272 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44273 subdivision = settings.clipping_cap_subdivision) 
    44274 File
    44275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44276 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44277 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44278 File
    44279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44280 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44281 cm.set_geometry(varray, narray, tarray) 
    44282 File
    44283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44284 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44285 arv() 
    44286 File
    44287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44288 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44289 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44290 File
    44291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44292 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44293 s.vertex_colors = self.vertex_colors(report_stats) 
    44294 File
    44295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44296 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44297 values, outside = self.volume_values() 
    44298 File
    44299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44300 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44301 return self.offset_values(v, n, tf) 
    44302 File
    44303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44304 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44305 values, outside = self.vertex_values(v, xf) 
    44306 File
    44307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44308 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44309 out_of_bounds_list = True) 
    44310 File
    44311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44312 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44313 subregion, step) 
    44314 File
    44315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44316 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44317 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44318 File
    44319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44320 packages/chimerax/map/volume.py", line 1243, in
    44321 matrix_indices_to_xyz_transform 
    44322 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44323 File
    44324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44325 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44326 r = self.subregion(step, subregion) 
    44327 File
    44328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44329 packages/chimerax/map/volume.py", line 1558, in subregion 
    44330 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44331 AttributeError: 'NoneType' object has no attribute 'size' 
    44332  
    44333 AttributeError: 'NoneType' object has no attribute 'size' 
    44334  
    44335 File
    44336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44337 packages/chimerax/map/volume.py", line 1558, in subregion 
    44338 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44339  
    44340 See log for complete Python traceback. 
    44341  
    44342 Traceback (most recent call last): 
    44343 File
    44344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44345 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44346 drew = self.draw_new_frame() 
    44347 File
    44348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44349 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44350 surface.update_clip_caps(view) 
    44351 File
    44352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44353 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44354 subdivision = settings.clipping_cap_subdivision) 
    44355 File
    44356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44357 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44358 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44359 File
    44360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44361 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44362 cm.set_geometry(varray, narray, tarray) 
    44363 File
    44364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44365 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44366 arv() 
    44367 File
    44368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44369 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44370 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44371 File
    44372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44373 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44374 s.vertex_colors = self.vertex_colors(report_stats) 
    44375 File
    44376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44377 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44378 values, outside = self.volume_values() 
    44379 File
    44380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44381 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44382 return self.offset_values(v, n, tf) 
    44383 File
    44384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44385 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44386 values, outside = self.vertex_values(v, xf) 
    44387 File
    44388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44389 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44390 out_of_bounds_list = True) 
    44391 File
    44392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44393 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44394 subregion, step) 
    44395 File
    44396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44397 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44398 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44399 File
    44400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44401 packages/chimerax/map/volume.py", line 1243, in
    44402 matrix_indices_to_xyz_transform 
    44403 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44404 File
    44405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44406 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44407 r = self.subregion(step, subregion) 
    44408 File
    44409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44410 packages/chimerax/map/volume.py", line 1558, in subregion 
    44411 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44412 AttributeError: 'NoneType' object has no attribute 'size' 
    44413  
    44414 AttributeError: 'NoneType' object has no attribute 'size' 
    44415  
    44416 File
    44417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44418 packages/chimerax/map/volume.py", line 1558, in subregion 
    44419 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44420  
    44421 See log for complete Python traceback. 
    44422  
    44423 Traceback (most recent call last): 
    44424 File
    44425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44426 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44427 drew = self.draw_new_frame() 
    44428 File
    44429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44430 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44431 surface.update_clip_caps(view) 
    44432 File
    44433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44434 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44435 subdivision = settings.clipping_cap_subdivision) 
    44436 File
    44437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44438 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44439 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44440 File
    44441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44442 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44443 cm.set_geometry(varray, narray, tarray) 
    44444 File
    44445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44446 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44447 arv() 
    44448 File
    44449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44450 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44451 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44452 File
    44453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44454 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44455 s.vertex_colors = self.vertex_colors(report_stats) 
    44456 File
    44457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44458 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44459 values, outside = self.volume_values() 
    44460 File
    44461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44462 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44463 return self.offset_values(v, n, tf) 
    44464 File
    44465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44466 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44467 values, outside = self.vertex_values(v, xf) 
    44468 File
    44469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44470 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44471 out_of_bounds_list = True) 
    44472 File
    44473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44474 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44475 subregion, step) 
    44476 File
    44477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44478 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44479 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44480 File
    44481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44482 packages/chimerax/map/volume.py", line 1243, in
    44483 matrix_indices_to_xyz_transform 
    44484 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44485 File
    44486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44487 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44488 r = self.subregion(step, subregion) 
    44489 File
    44490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44491 packages/chimerax/map/volume.py", line 1558, in subregion 
    44492 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44493 AttributeError: 'NoneType' object has no attribute 'size' 
    44494  
    44495 AttributeError: 'NoneType' object has no attribute 'size' 
    44496  
    44497 File
    44498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44499 packages/chimerax/map/volume.py", line 1558, in subregion 
    44500 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44501  
    44502 See log for complete Python traceback. 
    44503  
    44504 Traceback (most recent call last): 
    44505 File
    44506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44507 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44508 drew = self.draw_new_frame() 
    44509 File
    44510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44511 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44512 surface.update_clip_caps(view) 
    44513 File
    44514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44515 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44516 subdivision = settings.clipping_cap_subdivision) 
    44517 File
    44518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44519 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44520 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44521 File
    44522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44523 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44524 cm.set_geometry(varray, narray, tarray) 
    44525 File
    44526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44527 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44528 arv() 
    44529 File
    44530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44531 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44532 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44533 File
    44534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44535 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44536 s.vertex_colors = self.vertex_colors(report_stats) 
    44537 File
    44538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44539 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44540 values, outside = self.volume_values() 
    44541 File
    44542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44543 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44544 return self.offset_values(v, n, tf) 
    44545 File
    44546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44547 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44548 values, outside = self.vertex_values(v, xf) 
    44549 File
    44550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44551 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44552 out_of_bounds_list = True) 
    44553 File
    44554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44555 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44556 subregion, step) 
    44557 File
    44558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44559 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44560 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44561 File
    44562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44563 packages/chimerax/map/volume.py", line 1243, in
    44564 matrix_indices_to_xyz_transform 
    44565 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44566 File
    44567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44568 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44569 r = self.subregion(step, subregion) 
    44570 File
    44571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44572 packages/chimerax/map/volume.py", line 1558, in subregion 
    44573 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44574 AttributeError: 'NoneType' object has no attribute 'size' 
    44575  
    44576 AttributeError: 'NoneType' object has no attribute 'size' 
    44577  
    44578 File
    44579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44580 packages/chimerax/map/volume.py", line 1558, in subregion 
    44581 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44582  
    44583 See log for complete Python traceback. 
    44584  
    44585 Traceback (most recent call last): 
    44586 File
    44587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44588 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44589 drew = self.draw_new_frame() 
    44590 File
    44591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44592 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44593 surface.update_clip_caps(view) 
    44594 File
    44595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44596 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44597 subdivision = settings.clipping_cap_subdivision) 
    44598 File
    44599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44600 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44601 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44602 File
    44603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44604 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44605 cm.set_geometry(varray, narray, tarray) 
    44606 File
    44607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44608 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44609 arv() 
    44610 File
    44611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44612 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44613 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44614 File
    44615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44616 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44617 s.vertex_colors = self.vertex_colors(report_stats) 
    44618 File
    44619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44620 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44621 values, outside = self.volume_values() 
    44622 File
    44623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44624 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44625 return self.offset_values(v, n, tf) 
    44626 File
    44627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44628 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44629 values, outside = self.vertex_values(v, xf) 
    44630 File
    44631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44632 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44633 out_of_bounds_list = True) 
    44634 File
    44635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44636 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44637 subregion, step) 
    44638 File
    44639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44640 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44641 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44642 File
    44643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44644 packages/chimerax/map/volume.py", line 1243, in
    44645 matrix_indices_to_xyz_transform 
    44646 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44647 File
    44648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44649 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44650 r = self.subregion(step, subregion) 
    44651 File
    44652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44653 packages/chimerax/map/volume.py", line 1558, in subregion 
    44654 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44655 AttributeError: 'NoneType' object has no attribute 'size' 
    44656  
    44657 AttributeError: 'NoneType' object has no attribute 'size' 
    44658  
    44659 File
    44660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44661 packages/chimerax/map/volume.py", line 1558, in subregion 
    44662 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44663  
    44664 See log for complete Python traceback. 
    44665  
    44666 Traceback (most recent call last): 
    44667 File
    44668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44669 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44670 drew = self.draw_new_frame() 
    44671 File
    44672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44673 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44674 surface.update_clip_caps(view) 
    44675 File
    44676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44677 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44678 subdivision = settings.clipping_cap_subdivision) 
    44679 File
    44680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44681 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44682 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44683 File
    44684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44685 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44686 cm.set_geometry(varray, narray, tarray) 
    44687 File
    44688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44689 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44690 arv() 
    44691 File
    44692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44693 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44694 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44695 File
    44696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44697 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44698 s.vertex_colors = self.vertex_colors(report_stats) 
    44699 File
    44700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44701 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44702 values, outside = self.volume_values() 
    44703 File
    44704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44705 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44706 return self.offset_values(v, n, tf) 
    44707 File
    44708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44709 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44710 values, outside = self.vertex_values(v, xf) 
    44711 File
    44712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44713 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44714 out_of_bounds_list = True) 
    44715 File
    44716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44717 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44718 subregion, step) 
    44719 File
    44720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44721 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44722 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44723 File
    44724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44725 packages/chimerax/map/volume.py", line 1243, in
    44726 matrix_indices_to_xyz_transform 
    44727 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44728 File
    44729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44730 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44731 r = self.subregion(step, subregion) 
    44732 File
    44733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44734 packages/chimerax/map/volume.py", line 1558, in subregion 
    44735 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44736 AttributeError: 'NoneType' object has no attribute 'size' 
    44737  
    44738 AttributeError: 'NoneType' object has no attribute 'size' 
    44739  
    44740 File
    44741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44742 packages/chimerax/map/volume.py", line 1558, in subregion 
    44743 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44744  
    44745 See log for complete Python traceback. 
    44746  
    44747 Traceback (most recent call last): 
    44748 File
    44749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44750 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44751 drew = self.draw_new_frame() 
    44752 File
    44753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44754 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44755 surface.update_clip_caps(view) 
    44756 File
    44757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44758 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44759 subdivision = settings.clipping_cap_subdivision) 
    44760 File
    44761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44762 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44763 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44764 File
    44765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44766 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44767 cm.set_geometry(varray, narray, tarray) 
    44768 File
    44769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44770 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44771 arv() 
    44772 File
    44773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44774 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44775 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44776 File
    44777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44778 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44779 s.vertex_colors = self.vertex_colors(report_stats) 
    44780 File
    44781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44782 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44783 values, outside = self.volume_values() 
    44784 File
    44785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44786 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44787 return self.offset_values(v, n, tf) 
    44788 File
    44789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44790 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44791 values, outside = self.vertex_values(v, xf) 
    44792 File
    44793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44794 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44795 out_of_bounds_list = True) 
    44796 File
    44797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44798 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44799 subregion, step) 
    44800 File
    44801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44802 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44803 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44804 File
    44805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44806 packages/chimerax/map/volume.py", line 1243, in
    44807 matrix_indices_to_xyz_transform 
    44808 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44809 File
    44810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44811 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44812 r = self.subregion(step, subregion) 
    44813 File
    44814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44815 packages/chimerax/map/volume.py", line 1558, in subregion 
    44816 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44817 AttributeError: 'NoneType' object has no attribute 'size' 
    44818  
    44819 AttributeError: 'NoneType' object has no attribute 'size' 
    44820  
    44821 File
    44822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44823 packages/chimerax/map/volume.py", line 1558, in subregion 
    44824 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44825  
    44826 See log for complete Python traceback. 
    44827  
    44828 Traceback (most recent call last): 
    44829 File
    44830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44831 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44832 drew = self.draw_new_frame() 
    44833 File
    44834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44835 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44836 surface.update_clip_caps(view) 
    44837 File
    44838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44839 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44840 subdivision = settings.clipping_cap_subdivision) 
    44841 File
    44842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44843 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44844 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44845 File
    44846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44847 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44848 cm.set_geometry(varray, narray, tarray) 
    44849 File
    44850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44851 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44852 arv() 
    44853 File
    44854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44855 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44856 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44857 File
    44858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44859 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44860 s.vertex_colors = self.vertex_colors(report_stats) 
    44861 File
    44862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44863 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44864 values, outside = self.volume_values() 
    44865 File
    44866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44867 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44868 return self.offset_values(v, n, tf) 
    44869 File
    44870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44871 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44872 values, outside = self.vertex_values(v, xf) 
    44873 File
    44874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44875 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44876 out_of_bounds_list = True) 
    44877 File
    44878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44879 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44880 subregion, step) 
    44881 File
    44882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44883 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44884 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44885 File
    44886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44887 packages/chimerax/map/volume.py", line 1243, in
    44888 matrix_indices_to_xyz_transform 
    44889 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44890 File
    44891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44892 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44893 r = self.subregion(step, subregion) 
    44894 File
    44895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44896 packages/chimerax/map/volume.py", line 1558, in subregion 
    44897 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44898 AttributeError: 'NoneType' object has no attribute 'size' 
    44899  
    44900 AttributeError: 'NoneType' object has no attribute 'size' 
    44901  
    44902 File
    44903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44904 packages/chimerax/map/volume.py", line 1558, in subregion 
    44905 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44906  
    44907 See log for complete Python traceback. 
    44908  
    44909 Traceback (most recent call last): 
    44910 File
    44911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44912 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44913 drew = self.draw_new_frame() 
    44914 File
    44915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44916 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44917 surface.update_clip_caps(view) 
    44918 File
    44919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44920 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    44921 subdivision = settings.clipping_cap_subdivision) 
    44922 File
    44923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44924 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    44925 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    44926 File
    44927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44928 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    44929 cm.set_geometry(varray, narray, tarray) 
    44930 File
    44931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44932 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    44933 arv() 
    44934 File
    44935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44936 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    44937 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    44938 File
    44939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44940 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    44941 s.vertex_colors = self.vertex_colors(report_stats) 
    44942 File
    44943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44944 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    44945 values, outside = self.volume_values() 
    44946 File
    44947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44948 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    44949 return self.offset_values(v, n, tf) 
    44950 File
    44951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44952 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    44953 values, outside = self.vertex_values(v, xf) 
    44954 File
    44955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44956 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    44957 out_of_bounds_list = True) 
    44958 File
    44959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44960 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    44961 subregion, step) 
    44962 File
    44963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44964 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    44965 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    44966 File
    44967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44968 packages/chimerax/map/volume.py", line 1243, in
    44969 matrix_indices_to_xyz_transform 
    44970 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    44971 File
    44972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44973 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    44974 r = self.subregion(step, subregion) 
    44975 File
    44976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44977 packages/chimerax/map/volume.py", line 1558, in subregion 
    44978 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44979 AttributeError: 'NoneType' object has no attribute 'size' 
    44980  
    44981 AttributeError: 'NoneType' object has no attribute 'size' 
    44982  
    44983 File
    44984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44985 packages/chimerax/map/volume.py", line 1558, in subregion 
    44986 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    44987  
    44988 See log for complete Python traceback. 
    44989  
    44990 Traceback (most recent call last): 
    44991 File
    44992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44993 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    44994 drew = self.draw_new_frame() 
    44995 File
    44996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    44997 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    44998 surface.update_clip_caps(view) 
    44999 File
    45000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45001 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45002 subdivision = settings.clipping_cap_subdivision) 
    45003 File
    45004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45005 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45006 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45007 File
    45008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45009 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45010 cm.set_geometry(varray, narray, tarray) 
    45011 File
    45012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45013 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45014 arv() 
    45015 File
    45016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45017 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45018 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45019 File
    45020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45021 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45022 s.vertex_colors = self.vertex_colors(report_stats) 
    45023 File
    45024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45025 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45026 values, outside = self.volume_values() 
    45027 File
    45028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45029 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45030 return self.offset_values(v, n, tf) 
    45031 File
    45032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45033 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45034 values, outside = self.vertex_values(v, xf) 
    45035 File
    45036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45037 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45038 out_of_bounds_list = True) 
    45039 File
    45040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45041 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45042 subregion, step) 
    45043 File
    45044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45045 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45046 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45047 File
    45048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45049 packages/chimerax/map/volume.py", line 1243, in
    45050 matrix_indices_to_xyz_transform 
    45051 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45052 File
    45053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45054 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45055 r = self.subregion(step, subregion) 
    45056 File
    45057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45058 packages/chimerax/map/volume.py", line 1558, in subregion 
    45059 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45060 AttributeError: 'NoneType' object has no attribute 'size' 
    45061  
    45062 AttributeError: 'NoneType' object has no attribute 'size' 
    45063  
    45064 File
    45065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45066 packages/chimerax/map/volume.py", line 1558, in subregion 
    45067 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45068  
    45069 See log for complete Python traceback. 
    45070  
    45071 Traceback (most recent call last): 
    45072 File
    45073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45074 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45075 drew = self.draw_new_frame() 
    45076 File
    45077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45078 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45079 surface.update_clip_caps(view) 
    45080 File
    45081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45082 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45083 subdivision = settings.clipping_cap_subdivision) 
    45084 File
    45085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45086 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45087 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45088 File
    45089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45090 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45091 cm.set_geometry(varray, narray, tarray) 
    45092 File
    45093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45094 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45095 arv() 
    45096 File
    45097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45098 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45099 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45100 File
    45101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45102 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45103 s.vertex_colors = self.vertex_colors(report_stats) 
    45104 File
    45105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45106 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45107 values, outside = self.volume_values() 
    45108 File
    45109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45110 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45111 return self.offset_values(v, n, tf) 
    45112 File
    45113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45114 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45115 values, outside = self.vertex_values(v, xf) 
    45116 File
    45117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45118 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45119 out_of_bounds_list = True) 
    45120 File
    45121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45122 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45123 subregion, step) 
    45124 File
    45125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45126 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45127 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45128 File
    45129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45130 packages/chimerax/map/volume.py", line 1243, in
    45131 matrix_indices_to_xyz_transform 
    45132 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45133 File
    45134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45135 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45136 r = self.subregion(step, subregion) 
    45137 File
    45138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45139 packages/chimerax/map/volume.py", line 1558, in subregion 
    45140 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45141 AttributeError: 'NoneType' object has no attribute 'size' 
    45142  
    45143 AttributeError: 'NoneType' object has no attribute 'size' 
    45144  
    45145 File
    45146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45147 packages/chimerax/map/volume.py", line 1558, in subregion 
    45148 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45149  
    45150 See log for complete Python traceback. 
    45151  
    45152 Traceback (most recent call last): 
    45153 File
    45154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45155 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45156 drew = self.draw_new_frame() 
    45157 File
    45158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45159 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45160 surface.update_clip_caps(view) 
    45161 File
    45162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45163 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45164 subdivision = settings.clipping_cap_subdivision) 
    45165 File
    45166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45167 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45168 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45169 File
    45170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45171 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45172 cm.set_geometry(varray, narray, tarray) 
    45173 File
    45174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45175 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45176 arv() 
    45177 File
    45178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45179 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45180 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45181 File
    45182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45183 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45184 s.vertex_colors = self.vertex_colors(report_stats) 
    45185 File
    45186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45187 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45188 values, outside = self.volume_values() 
    45189 File
    45190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45191 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45192 return self.offset_values(v, n, tf) 
    45193 File
    45194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45195 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45196 values, outside = self.vertex_values(v, xf) 
    45197 File
    45198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45199 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45200 out_of_bounds_list = True) 
    45201 File
    45202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45203 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45204 subregion, step) 
    45205 File
    45206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45207 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45208 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45209 File
    45210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45211 packages/chimerax/map/volume.py", line 1243, in
    45212 matrix_indices_to_xyz_transform 
    45213 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45214 File
    45215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45216 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45217 r = self.subregion(step, subregion) 
    45218 File
    45219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45220 packages/chimerax/map/volume.py", line 1558, in subregion 
    45221 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45222 AttributeError: 'NoneType' object has no attribute 'size' 
    45223  
    45224 AttributeError: 'NoneType' object has no attribute 'size' 
    45225  
    45226 File
    45227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45228 packages/chimerax/map/volume.py", line 1558, in subregion 
    45229 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45230  
    45231 See log for complete Python traceback. 
    45232  
    45233 Traceback (most recent call last): 
    45234 File
    45235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45236 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45237 drew = self.draw_new_frame() 
    45238 File
    45239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45240 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45241 surface.update_clip_caps(view) 
    45242 File
    45243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45244 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45245 subdivision = settings.clipping_cap_subdivision) 
    45246 File
    45247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45248 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45249 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45250 File
    45251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45252 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45253 cm.set_geometry(varray, narray, tarray) 
    45254 File
    45255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45256 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45257 arv() 
    45258 File
    45259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45260 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45261 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45262 File
    45263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45264 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45265 s.vertex_colors = self.vertex_colors(report_stats) 
    45266 File
    45267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45268 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45269 values, outside = self.volume_values() 
    45270 File
    45271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45272 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45273 return self.offset_values(v, n, tf) 
    45274 File
    45275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45276 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45277 values, outside = self.vertex_values(v, xf) 
    45278 File
    45279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45280 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45281 out_of_bounds_list = True) 
    45282 File
    45283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45284 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45285 subregion, step) 
    45286 File
    45287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45288 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45289 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45290 File
    45291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45292 packages/chimerax/map/volume.py", line 1243, in
    45293 matrix_indices_to_xyz_transform 
    45294 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45295 File
    45296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45297 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45298 r = self.subregion(step, subregion) 
    45299 File
    45300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45301 packages/chimerax/map/volume.py", line 1558, in subregion 
    45302 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45303 AttributeError: 'NoneType' object has no attribute 'size' 
    45304  
    45305 AttributeError: 'NoneType' object has no attribute 'size' 
    45306  
    45307 File
    45308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45309 packages/chimerax/map/volume.py", line 1558, in subregion 
    45310 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45311  
    45312 See log for complete Python traceback. 
    45313  
    45314 Traceback (most recent call last): 
    45315 File
    45316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45317 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45318 drew = self.draw_new_frame() 
    45319 File
    45320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45321 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45322 surface.update_clip_caps(view) 
    45323 File
    45324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45325 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45326 subdivision = settings.clipping_cap_subdivision) 
    45327 File
    45328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45329 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45330 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45331 File
    45332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45333 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45334 cm.set_geometry(varray, narray, tarray) 
    45335 File
    45336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45337 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45338 arv() 
    45339 File
    45340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45341 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45342 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45343 File
    45344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45345 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45346 s.vertex_colors = self.vertex_colors(report_stats) 
    45347 File
    45348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45349 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45350 values, outside = self.volume_values() 
    45351 File
    45352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45353 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45354 return self.offset_values(v, n, tf) 
    45355 File
    45356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45357 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45358 values, outside = self.vertex_values(v, xf) 
    45359 File
    45360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45361 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45362 out_of_bounds_list = True) 
    45363 File
    45364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45365 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45366 subregion, step) 
    45367 File
    45368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45369 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45370 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45371 File
    45372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45373 packages/chimerax/map/volume.py", line 1243, in
    45374 matrix_indices_to_xyz_transform 
    45375 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45376 File
    45377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45378 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45379 r = self.subregion(step, subregion) 
    45380 File
    45381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45382 packages/chimerax/map/volume.py", line 1558, in subregion 
    45383 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45384 AttributeError: 'NoneType' object has no attribute 'size' 
    45385  
    45386 AttributeError: 'NoneType' object has no attribute 'size' 
    45387  
    45388 File
    45389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45390 packages/chimerax/map/volume.py", line 1558, in subregion 
    45391 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45392  
    45393 See log for complete Python traceback. 
    45394  
    45395 Traceback (most recent call last): 
    45396 File
    45397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45398 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45399 drew = self.draw_new_frame() 
    45400 File
    45401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45402 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45403 surface.update_clip_caps(view) 
    45404 File
    45405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45406 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45407 subdivision = settings.clipping_cap_subdivision) 
    45408 File
    45409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45410 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45411 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45412 File
    45413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45414 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45415 cm.set_geometry(varray, narray, tarray) 
    45416 File
    45417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45418 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45419 arv() 
    45420 File
    45421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45422 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45423 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45424 File
    45425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45426 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45427 s.vertex_colors = self.vertex_colors(report_stats) 
    45428 File
    45429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45430 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45431 values, outside = self.volume_values() 
    45432 File
    45433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45434 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45435 return self.offset_values(v, n, tf) 
    45436 File
    45437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45438 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45439 values, outside = self.vertex_values(v, xf) 
    45440 File
    45441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45442 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45443 out_of_bounds_list = True) 
    45444 File
    45445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45446 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45447 subregion, step) 
    45448 File
    45449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45450 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45451 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45452 File
    45453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45454 packages/chimerax/map/volume.py", line 1243, in
    45455 matrix_indices_to_xyz_transform 
    45456 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45457 File
    45458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45459 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45460 r = self.subregion(step, subregion) 
    45461 File
    45462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45463 packages/chimerax/map/volume.py", line 1558, in subregion 
    45464 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45465 AttributeError: 'NoneType' object has no attribute 'size' 
    45466  
    45467 AttributeError: 'NoneType' object has no attribute 'size' 
    45468  
    45469 File
    45470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45471 packages/chimerax/map/volume.py", line 1558, in subregion 
    45472 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45473  
    45474 See log for complete Python traceback. 
    45475  
    45476 Traceback (most recent call last): 
    45477 File
    45478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45479 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45480 drew = self.draw_new_frame() 
    45481 File
    45482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45483 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45484 surface.update_clip_caps(view) 
    45485 File
    45486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45487 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45488 subdivision = settings.clipping_cap_subdivision) 
    45489 File
    45490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45491 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45492 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45493 File
    45494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45495 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45496 cm.set_geometry(varray, narray, tarray) 
    45497 File
    45498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45499 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45500 arv() 
    45501 File
    45502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45503 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45504 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45505 File
    45506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45507 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45508 s.vertex_colors = self.vertex_colors(report_stats) 
    45509 File
    45510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45511 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45512 values, outside = self.volume_values() 
    45513 File
    45514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45515 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45516 return self.offset_values(v, n, tf) 
    45517 File
    45518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45519 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45520 values, outside = self.vertex_values(v, xf) 
    45521 File
    45522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45523 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45524 out_of_bounds_list = True) 
    45525 File
    45526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45527 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45528 subregion, step) 
    45529 File
    45530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45531 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45532 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45533 File
    45534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45535 packages/chimerax/map/volume.py", line 1243, in
    45536 matrix_indices_to_xyz_transform 
    45537 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45538 File
    45539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45540 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45541 r = self.subregion(step, subregion) 
    45542 File
    45543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45544 packages/chimerax/map/volume.py", line 1558, in subregion 
    45545 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45546 AttributeError: 'NoneType' object has no attribute 'size' 
    45547  
    45548 AttributeError: 'NoneType' object has no attribute 'size' 
    45549  
    45550 File
    45551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45552 packages/chimerax/map/volume.py", line 1558, in subregion 
    45553 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45554  
    45555 See log for complete Python traceback. 
    45556  
    45557 Traceback (most recent call last): 
    45558 File
    45559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45560 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45561 drew = self.draw_new_frame() 
    45562 File
    45563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45564 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45565 surface.update_clip_caps(view) 
    45566 File
    45567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45568 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45569 subdivision = settings.clipping_cap_subdivision) 
    45570 File
    45571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45572 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45573 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45574 File
    45575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45576 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45577 cm.set_geometry(varray, narray, tarray) 
    45578 File
    45579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45580 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45581 arv() 
    45582 File
    45583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45584 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45585 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45586 File
    45587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45588 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45589 s.vertex_colors = self.vertex_colors(report_stats) 
    45590 File
    45591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45592 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45593 values, outside = self.volume_values() 
    45594 File
    45595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45596 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45597 return self.offset_values(v, n, tf) 
    45598 File
    45599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45600 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45601 values, outside = self.vertex_values(v, xf) 
    45602 File
    45603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45604 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45605 out_of_bounds_list = True) 
    45606 File
    45607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45608 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45609 subregion, step) 
    45610 File
    45611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45612 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45613 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45614 File
    45615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45616 packages/chimerax/map/volume.py", line 1243, in
    45617 matrix_indices_to_xyz_transform 
    45618 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45619 File
    45620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45621 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45622 r = self.subregion(step, subregion) 
    45623 File
    45624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45625 packages/chimerax/map/volume.py", line 1558, in subregion 
    45626 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45627 AttributeError: 'NoneType' object has no attribute 'size' 
    45628  
    45629 AttributeError: 'NoneType' object has no attribute 'size' 
    45630  
    45631 File
    45632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45633 packages/chimerax/map/volume.py", line 1558, in subregion 
    45634 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45635  
    45636 See log for complete Python traceback. 
    45637  
    45638 Traceback (most recent call last): 
    45639 File
    45640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45641 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45642 drew = self.draw_new_frame() 
    45643 File
    45644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45645 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45646 surface.update_clip_caps(view) 
    45647 File
    45648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45649 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45650 subdivision = settings.clipping_cap_subdivision) 
    45651 File
    45652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45653 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45654 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45655 File
    45656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45657 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45658 cm.set_geometry(varray, narray, tarray) 
    45659 File
    45660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45661 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45662 arv() 
    45663 File
    45664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45665 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45666 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45667 File
    45668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45669 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45670 s.vertex_colors = self.vertex_colors(report_stats) 
    45671 File
    45672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45673 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45674 values, outside = self.volume_values() 
    45675 File
    45676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45677 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45678 return self.offset_values(v, n, tf) 
    45679 File
    45680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45681 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45682 values, outside = self.vertex_values(v, xf) 
    45683 File
    45684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45685 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45686 out_of_bounds_list = True) 
    45687 File
    45688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45689 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45690 subregion, step) 
    45691 File
    45692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45693 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45694 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45695 File
    45696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45697 packages/chimerax/map/volume.py", line 1243, in
    45698 matrix_indices_to_xyz_transform 
    45699 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45700 File
    45701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45702 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45703 r = self.subregion(step, subregion) 
    45704 File
    45705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45706 packages/chimerax/map/volume.py", line 1558, in subregion 
    45707 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45708 AttributeError: 'NoneType' object has no attribute 'size' 
    45709  
    45710 AttributeError: 'NoneType' object has no attribute 'size' 
    45711  
    45712 File
    45713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45714 packages/chimerax/map/volume.py", line 1558, in subregion 
    45715 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45716  
    45717 See log for complete Python traceback. 
    45718  
    45719 Traceback (most recent call last): 
    45720 File
    45721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45722 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45723 drew = self.draw_new_frame() 
    45724 File
    45725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45726 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45727 surface.update_clip_caps(view) 
    45728 File
    45729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45730 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45731 subdivision = settings.clipping_cap_subdivision) 
    45732 File
    45733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45734 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45735 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45736 File
    45737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45738 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45739 cm.set_geometry(varray, narray, tarray) 
    45740 File
    45741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45742 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45743 arv() 
    45744 File
    45745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45746 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45747 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45748 File
    45749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45750 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45751 s.vertex_colors = self.vertex_colors(report_stats) 
    45752 File
    45753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45754 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45755 values, outside = self.volume_values() 
    45756 File
    45757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45758 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45759 return self.offset_values(v, n, tf) 
    45760 File
    45761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45762 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45763 values, outside = self.vertex_values(v, xf) 
    45764 File
    45765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45766 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45767 out_of_bounds_list = True) 
    45768 File
    45769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45770 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45771 subregion, step) 
    45772 File
    45773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45774 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45775 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45776 File
    45777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45778 packages/chimerax/map/volume.py", line 1243, in
    45779 matrix_indices_to_xyz_transform 
    45780 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45781 File
    45782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45783 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45784 r = self.subregion(step, subregion) 
    45785 File
    45786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45787 packages/chimerax/map/volume.py", line 1558, in subregion 
    45788 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45789 AttributeError: 'NoneType' object has no attribute 'size' 
    45790  
    45791 AttributeError: 'NoneType' object has no attribute 'size' 
    45792  
    45793 File
    45794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45795 packages/chimerax/map/volume.py", line 1558, in subregion 
    45796 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45797  
    45798 See log for complete Python traceback. 
    45799  
    45800 Traceback (most recent call last): 
    45801 File
    45802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45803 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45804 drew = self.draw_new_frame() 
    45805 File
    45806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45807 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45808 surface.update_clip_caps(view) 
    45809 File
    45810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45811 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45812 subdivision = settings.clipping_cap_subdivision) 
    45813 File
    45814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45815 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45816 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45817 File
    45818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45819 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45820 cm.set_geometry(varray, narray, tarray) 
    45821 File
    45822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45823 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45824 arv() 
    45825 File
    45826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45827 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45828 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45829 File
    45830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45831 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45832 s.vertex_colors = self.vertex_colors(report_stats) 
    45833 File
    45834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45835 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45836 values, outside = self.volume_values() 
    45837 File
    45838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45839 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45840 return self.offset_values(v, n, tf) 
    45841 File
    45842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45843 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45844 values, outside = self.vertex_values(v, xf) 
    45845 File
    45846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45847 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45848 out_of_bounds_list = True) 
    45849 File
    45850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45851 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45852 subregion, step) 
    45853 File
    45854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45855 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45856 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45857 File
    45858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45859 packages/chimerax/map/volume.py", line 1243, in
    45860 matrix_indices_to_xyz_transform 
    45861 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45862 File
    45863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45864 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45865 r = self.subregion(step, subregion) 
    45866 File
    45867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45868 packages/chimerax/map/volume.py", line 1558, in subregion 
    45869 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45870 AttributeError: 'NoneType' object has no attribute 'size' 
    45871  
    45872 AttributeError: 'NoneType' object has no attribute 'size' 
    45873  
    45874 File
    45875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45876 packages/chimerax/map/volume.py", line 1558, in subregion 
    45877 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45878  
    45879 See log for complete Python traceback. 
    45880  
    45881 Traceback (most recent call last): 
    45882 File
    45883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45884 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45885 drew = self.draw_new_frame() 
    45886 File
    45887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45888 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45889 surface.update_clip_caps(view) 
    45890 File
    45891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45892 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45893 subdivision = settings.clipping_cap_subdivision) 
    45894 File
    45895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45896 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45897 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45898 File
    45899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45900 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45901 cm.set_geometry(varray, narray, tarray) 
    45902 File
    45903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45904 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45905 arv() 
    45906 File
    45907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45908 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45909 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45910 File
    45911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45912 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45913 s.vertex_colors = self.vertex_colors(report_stats) 
    45914 File
    45915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45916 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45917 values, outside = self.volume_values() 
    45918 File
    45919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45920 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    45921 return self.offset_values(v, n, tf) 
    45922 File
    45923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45924 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    45925 values, outside = self.vertex_values(v, xf) 
    45926 File
    45927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45928 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    45929 out_of_bounds_list = True) 
    45930 File
    45931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45932 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    45933 subregion, step) 
    45934 File
    45935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45936 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    45937 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    45938 File
    45939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45940 packages/chimerax/map/volume.py", line 1243, in
    45941 matrix_indices_to_xyz_transform 
    45942 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    45943 File
    45944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45945 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    45946 r = self.subregion(step, subregion) 
    45947 File
    45948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45949 packages/chimerax/map/volume.py", line 1558, in subregion 
    45950 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45951 AttributeError: 'NoneType' object has no attribute 'size' 
    45952  
    45953 AttributeError: 'NoneType' object has no attribute 'size' 
    45954  
    45955 File
    45956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45957 packages/chimerax/map/volume.py", line 1558, in subregion 
    45958 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    45959  
    45960 See log for complete Python traceback. 
    45961  
    45962 Traceback (most recent call last): 
    45963 File
    45964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45965 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    45966 drew = self.draw_new_frame() 
    45967 File
    45968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45969 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    45970 surface.update_clip_caps(view) 
    45971 File
    45972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45973 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    45974 subdivision = settings.clipping_cap_subdivision) 
    45975 File
    45976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45977 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    45978 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    45979 File
    45980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45981 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    45982 cm.set_geometry(varray, narray, tarray) 
    45983 File
    45984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45985 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    45986 arv() 
    45987 File
    45988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45989 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    45990 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    45991 File
    45992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45993 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    45994 s.vertex_colors = self.vertex_colors(report_stats) 
    45995 File
    45996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    45997 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    45998 values, outside = self.volume_values() 
    45999 File
    46000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46001 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46002 return self.offset_values(v, n, tf) 
    46003 File
    46004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46005 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46006 values, outside = self.vertex_values(v, xf) 
    46007 File
    46008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46009 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46010 out_of_bounds_list = True) 
    46011 File
    46012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46013 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46014 subregion, step) 
    46015 File
    46016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46017 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46018 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46019 File
    46020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46021 packages/chimerax/map/volume.py", line 1243, in
    46022 matrix_indices_to_xyz_transform 
    46023 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46024 File
    46025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46026 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46027 r = self.subregion(step, subregion) 
    46028 File
    46029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46030 packages/chimerax/map/volume.py", line 1558, in subregion 
    46031 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46032 AttributeError: 'NoneType' object has no attribute 'size' 
    46033  
    46034 AttributeError: 'NoneType' object has no attribute 'size' 
    46035  
    46036 File
    46037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46038 packages/chimerax/map/volume.py", line 1558, in subregion 
    46039 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46040  
    46041 See log for complete Python traceback. 
    46042  
    46043 Traceback (most recent call last): 
    46044 File
    46045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46046 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46047 drew = self.draw_new_frame() 
    46048 File
    46049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46050 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46051 surface.update_clip_caps(view) 
    46052 File
    46053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46054 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46055 subdivision = settings.clipping_cap_subdivision) 
    46056 File
    46057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46058 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46059 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46060 File
    46061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46062 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46063 cm.set_geometry(varray, narray, tarray) 
    46064 File
    46065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46066 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46067 arv() 
    46068 File
    46069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46070 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46071 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46072 File
    46073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46074 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46075 s.vertex_colors = self.vertex_colors(report_stats) 
    46076 File
    46077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46078 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46079 values, outside = self.volume_values() 
    46080 File
    46081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46082 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46083 return self.offset_values(v, n, tf) 
    46084 File
    46085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46086 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46087 values, outside = self.vertex_values(v, xf) 
    46088 File
    46089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46090 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46091 out_of_bounds_list = True) 
    46092 File
    46093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46094 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46095 subregion, step) 
    46096 File
    46097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46098 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46099 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46100 File
    46101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46102 packages/chimerax/map/volume.py", line 1243, in
    46103 matrix_indices_to_xyz_transform 
    46104 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46105 File
    46106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46107 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46108 r = self.subregion(step, subregion) 
    46109 File
    46110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46111 packages/chimerax/map/volume.py", line 1558, in subregion 
    46112 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46113 AttributeError: 'NoneType' object has no attribute 'size' 
    46114  
    46115 AttributeError: 'NoneType' object has no attribute 'size' 
    46116  
    46117 File
    46118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46119 packages/chimerax/map/volume.py", line 1558, in subregion 
    46120 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46121  
    46122 See log for complete Python traceback. 
    46123  
    46124 Traceback (most recent call last): 
    46125 File
    46126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46127 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46128 drew = self.draw_new_frame() 
    46129 File
    46130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46131 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46132 surface.update_clip_caps(view) 
    46133 File
    46134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46135 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46136 subdivision = settings.clipping_cap_subdivision) 
    46137 File
    46138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46139 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46140 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46141 File
    46142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46143 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46144 cm.set_geometry(varray, narray, tarray) 
    46145 File
    46146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46147 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46148 arv() 
    46149 File
    46150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46151 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46152 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46153 File
    46154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46155 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46156 s.vertex_colors = self.vertex_colors(report_stats) 
    46157 File
    46158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46159 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46160 values, outside = self.volume_values() 
    46161 File
    46162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46163 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46164 return self.offset_values(v, n, tf) 
    46165 File
    46166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46167 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46168 values, outside = self.vertex_values(v, xf) 
    46169 File
    46170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46171 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46172 out_of_bounds_list = True) 
    46173 File
    46174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46175 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46176 subregion, step) 
    46177 File
    46178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46179 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46180 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46181 File
    46182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46183 packages/chimerax/map/volume.py", line 1243, in
    46184 matrix_indices_to_xyz_transform 
    46185 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46186 File
    46187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46188 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46189 r = self.subregion(step, subregion) 
    46190 File
    46191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46192 packages/chimerax/map/volume.py", line 1558, in subregion 
    46193 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46194 AttributeError: 'NoneType' object has no attribute 'size' 
    46195  
    46196 AttributeError: 'NoneType' object has no attribute 'size' 
    46197  
    46198 File
    46199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46200 packages/chimerax/map/volume.py", line 1558, in subregion 
    46201 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46202  
    46203 See log for complete Python traceback. 
    46204  
    46205 Traceback (most recent call last): 
    46206 File
    46207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46208 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46209 drew = self.draw_new_frame() 
    46210 File
    46211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46212 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46213 surface.update_clip_caps(view) 
    46214 File
    46215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46216 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46217 subdivision = settings.clipping_cap_subdivision) 
    46218 File
    46219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46220 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46221 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46222 File
    46223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46224 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46225 cm.set_geometry(varray, narray, tarray) 
    46226 File
    46227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46228 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46229 arv() 
    46230 File
    46231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46232 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46233 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46234 File
    46235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46236 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46237 s.vertex_colors = self.vertex_colors(report_stats) 
    46238 File
    46239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46240 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46241 values, outside = self.volume_values() 
    46242 File
    46243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46244 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46245 return self.offset_values(v, n, tf) 
    46246 File
    46247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46248 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46249 values, outside = self.vertex_values(v, xf) 
    46250 File
    46251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46252 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46253 out_of_bounds_list = True) 
    46254 File
    46255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46256 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46257 subregion, step) 
    46258 File
    46259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46260 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46261 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46262 File
    46263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46264 packages/chimerax/map/volume.py", line 1243, in
    46265 matrix_indices_to_xyz_transform 
    46266 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46267 File
    46268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46269 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46270 r = self.subregion(step, subregion) 
    46271 File
    46272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46273 packages/chimerax/map/volume.py", line 1558, in subregion 
    46274 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46275 AttributeError: 'NoneType' object has no attribute 'size' 
    46276  
    46277 AttributeError: 'NoneType' object has no attribute 'size' 
    46278  
    46279 File
    46280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46281 packages/chimerax/map/volume.py", line 1558, in subregion 
    46282 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46283  
    46284 See log for complete Python traceback. 
    46285  
    46286 Traceback (most recent call last): 
    46287 File
    46288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46289 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46290 drew = self.draw_new_frame() 
    46291 File
    46292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46293 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46294 surface.update_clip_caps(view) 
    46295 File
    46296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46297 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46298 subdivision = settings.clipping_cap_subdivision) 
    46299 File
    46300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46301 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46302 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46303 File
    46304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46305 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46306 cm.set_geometry(varray, narray, tarray) 
    46307 File
    46308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46309 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46310 arv() 
    46311 File
    46312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46313 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46314 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46315 File
    46316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46317 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46318 s.vertex_colors = self.vertex_colors(report_stats) 
    46319 File
    46320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46321 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46322 values, outside = self.volume_values() 
    46323 File
    46324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46325 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46326 return self.offset_values(v, n, tf) 
    46327 File
    46328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46329 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46330 values, outside = self.vertex_values(v, xf) 
    46331 File
    46332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46333 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46334 out_of_bounds_list = True) 
    46335 File
    46336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46337 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46338 subregion, step) 
    46339 File
    46340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46341 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46342 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46343 File
    46344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46345 packages/chimerax/map/volume.py", line 1243, in
    46346 matrix_indices_to_xyz_transform 
    46347 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46348 File
    46349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46350 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46351 r = self.subregion(step, subregion) 
    46352 File
    46353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46354 packages/chimerax/map/volume.py", line 1558, in subregion 
    46355 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46356 AttributeError: 'NoneType' object has no attribute 'size' 
    46357  
    46358 AttributeError: 'NoneType' object has no attribute 'size' 
    46359  
    46360 File
    46361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46362 packages/chimerax/map/volume.py", line 1558, in subregion 
    46363 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46364  
    46365 See log for complete Python traceback. 
    46366  
    46367 Traceback (most recent call last): 
    46368 File
    46369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46370 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46371 drew = self.draw_new_frame() 
    46372 File
    46373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46374 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46375 surface.update_clip_caps(view) 
    46376 File
    46377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46378 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46379 subdivision = settings.clipping_cap_subdivision) 
    46380 File
    46381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46382 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46383 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46384 File
    46385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46386 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46387 cm.set_geometry(varray, narray, tarray) 
    46388 File
    46389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46390 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46391 arv() 
    46392 File
    46393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46394 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46395 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46396 File
    46397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46398 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46399 s.vertex_colors = self.vertex_colors(report_stats) 
    46400 File
    46401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46402 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46403 values, outside = self.volume_values() 
    46404 File
    46405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46406 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46407 return self.offset_values(v, n, tf) 
    46408 File
    46409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46410 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46411 values, outside = self.vertex_values(v, xf) 
    46412 File
    46413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46414 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46415 out_of_bounds_list = True) 
    46416 File
    46417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46418 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46419 subregion, step) 
    46420 File
    46421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46422 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46423 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46424 File
    46425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46426 packages/chimerax/map/volume.py", line 1243, in
    46427 matrix_indices_to_xyz_transform 
    46428 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46429 File
    46430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46431 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46432 r = self.subregion(step, subregion) 
    46433 File
    46434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46435 packages/chimerax/map/volume.py", line 1558, in subregion 
    46436 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46437 AttributeError: 'NoneType' object has no attribute 'size' 
    46438  
    46439 AttributeError: 'NoneType' object has no attribute 'size' 
    46440  
    46441 File
    46442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46443 packages/chimerax/map/volume.py", line 1558, in subregion 
    46444 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46445  
    46446 See log for complete Python traceback. 
    46447  
    46448 Traceback (most recent call last): 
    46449 File
    46450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46451 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46452 drew = self.draw_new_frame() 
    46453 File
    46454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46455 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46456 surface.update_clip_caps(view) 
    46457 File
    46458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46459 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46460 subdivision = settings.clipping_cap_subdivision) 
    46461 File
    46462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46463 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46464 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46465 File
    46466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46467 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46468 cm.set_geometry(varray, narray, tarray) 
    46469 File
    46470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46471 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46472 arv() 
    46473 File
    46474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46475 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46476 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46477 File
    46478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46479 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46480 s.vertex_colors = self.vertex_colors(report_stats) 
    46481 File
    46482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46483 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46484 values, outside = self.volume_values() 
    46485 File
    46486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46487 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46488 return self.offset_values(v, n, tf) 
    46489 File
    46490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46491 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46492 values, outside = self.vertex_values(v, xf) 
    46493 File
    46494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46495 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46496 out_of_bounds_list = True) 
    46497 File
    46498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46499 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46500 subregion, step) 
    46501 File
    46502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46503 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46504 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46505 File
    46506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46507 packages/chimerax/map/volume.py", line 1243, in
    46508 matrix_indices_to_xyz_transform 
    46509 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46510 File
    46511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46512 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46513 r = self.subregion(step, subregion) 
    46514 File
    46515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46516 packages/chimerax/map/volume.py", line 1558, in subregion 
    46517 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46518 AttributeError: 'NoneType' object has no attribute 'size' 
    46519  
    46520 AttributeError: 'NoneType' object has no attribute 'size' 
    46521  
    46522 File
    46523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46524 packages/chimerax/map/volume.py", line 1558, in subregion 
    46525 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46526  
    46527 See log for complete Python traceback. 
    46528  
    46529 Traceback (most recent call last): 
    46530 File
    46531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46532 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46533 drew = self.draw_new_frame() 
    46534 File
    46535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46536 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46537 surface.update_clip_caps(view) 
    46538 File
    46539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46540 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46541 subdivision = settings.clipping_cap_subdivision) 
    46542 File
    46543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46544 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46545 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46546 File
    46547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46548 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46549 cm.set_geometry(varray, narray, tarray) 
    46550 File
    46551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46552 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46553 arv() 
    46554 File
    46555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46556 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46557 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46558 File
    46559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46560 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46561 s.vertex_colors = self.vertex_colors(report_stats) 
    46562 File
    46563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46564 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46565 values, outside = self.volume_values() 
    46566 File
    46567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46568 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46569 return self.offset_values(v, n, tf) 
    46570 File
    46571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46572 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46573 values, outside = self.vertex_values(v, xf) 
    46574 File
    46575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46576 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46577 out_of_bounds_list = True) 
    46578 File
    46579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46580 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46581 subregion, step) 
    46582 File
    46583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46584 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46585 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46586 File
    46587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46588 packages/chimerax/map/volume.py", line 1243, in
    46589 matrix_indices_to_xyz_transform 
    46590 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46591 File
    46592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46593 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46594 r = self.subregion(step, subregion) 
    46595 File
    46596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46597 packages/chimerax/map/volume.py", line 1558, in subregion 
    46598 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46599 AttributeError: 'NoneType' object has no attribute 'size' 
    46600  
    46601 AttributeError: 'NoneType' object has no attribute 'size' 
    46602  
    46603 File
    46604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46605 packages/chimerax/map/volume.py", line 1558, in subregion 
    46606 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46607  
    46608 See log for complete Python traceback. 
    46609  
    46610 Traceback (most recent call last): 
    46611 File
    46612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46613 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46614 drew = self.draw_new_frame() 
    46615 File
    46616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46617 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46618 surface.update_clip_caps(view) 
    46619 File
    46620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46621 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46622 subdivision = settings.clipping_cap_subdivision) 
    46623 File
    46624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46625 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46626 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46627 File
    46628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46629 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46630 cm.set_geometry(varray, narray, tarray) 
    46631 File
    46632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46633 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46634 arv() 
    46635 File
    46636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46637 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46638 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46639 File
    46640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46641 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46642 s.vertex_colors = self.vertex_colors(report_stats) 
    46643 File
    46644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46645 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46646 values, outside = self.volume_values() 
    46647 File
    46648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46649 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46650 return self.offset_values(v, n, tf) 
    46651 File
    46652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46653 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46654 values, outside = self.vertex_values(v, xf) 
    46655 File
    46656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46657 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46658 out_of_bounds_list = True) 
    46659 File
    46660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46661 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46662 subregion, step) 
    46663 File
    46664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46665 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46666 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46667 File
    46668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46669 packages/chimerax/map/volume.py", line 1243, in
    46670 matrix_indices_to_xyz_transform 
    46671 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46672 File
    46673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46674 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46675 r = self.subregion(step, subregion) 
    46676 File
    46677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46678 packages/chimerax/map/volume.py", line 1558, in subregion 
    46679 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46680 AttributeError: 'NoneType' object has no attribute 'size' 
    46681  
    46682 AttributeError: 'NoneType' object has no attribute 'size' 
    46683  
    46684 File
    46685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46686 packages/chimerax/map/volume.py", line 1558, in subregion 
    46687 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46688  
    46689 See log for complete Python traceback. 
    46690  
    46691 Traceback (most recent call last): 
    46692 File
    46693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46694 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46695 drew = self.draw_new_frame() 
    46696 File
    46697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46698 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46699 surface.update_clip_caps(view) 
    46700 File
    46701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46702 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46703 subdivision = settings.clipping_cap_subdivision) 
    46704 File
    46705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46706 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46707 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46708 File
    46709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46710 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46711 cm.set_geometry(varray, narray, tarray) 
    46712 File
    46713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46714 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46715 arv() 
    46716 File
    46717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46718 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46719 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46720 File
    46721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46722 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46723 s.vertex_colors = self.vertex_colors(report_stats) 
    46724 File
    46725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46726 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46727 values, outside = self.volume_values() 
    46728 File
    46729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46730 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46731 return self.offset_values(v, n, tf) 
    46732 File
    46733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46734 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46735 values, outside = self.vertex_values(v, xf) 
    46736 File
    46737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46738 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46739 out_of_bounds_list = True) 
    46740 File
    46741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46742 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46743 subregion, step) 
    46744 File
    46745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46746 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46747 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46748 File
    46749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46750 packages/chimerax/map/volume.py", line 1243, in
    46751 matrix_indices_to_xyz_transform 
    46752 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46753 File
    46754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46755 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46756 r = self.subregion(step, subregion) 
    46757 File
    46758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46759 packages/chimerax/map/volume.py", line 1558, in subregion 
    46760 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46761 AttributeError: 'NoneType' object has no attribute 'size' 
    46762  
    46763 AttributeError: 'NoneType' object has no attribute 'size' 
    46764  
    46765 File
    46766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46767 packages/chimerax/map/volume.py", line 1558, in subregion 
    46768 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46769  
    46770 See log for complete Python traceback. 
    46771  
    46772 Traceback (most recent call last): 
    46773 File
    46774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46775 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46776 drew = self.draw_new_frame() 
    46777 File
    46778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46779 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46780 surface.update_clip_caps(view) 
    46781 File
    46782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46783 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46784 subdivision = settings.clipping_cap_subdivision) 
    46785 File
    46786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46787 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46788 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46789 File
    46790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46791 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46792 cm.set_geometry(varray, narray, tarray) 
    46793 File
    46794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46795 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46796 arv() 
    46797 File
    46798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46799 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46800 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46801 File
    46802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46803 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46804 s.vertex_colors = self.vertex_colors(report_stats) 
    46805 File
    46806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46807 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46808 values, outside = self.volume_values() 
    46809 File
    46810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46811 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46812 return self.offset_values(v, n, tf) 
    46813 File
    46814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46815 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46816 values, outside = self.vertex_values(v, xf) 
    46817 File
    46818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46819 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46820 out_of_bounds_list = True) 
    46821 File
    46822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46823 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46824 subregion, step) 
    46825 File
    46826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46827 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46828 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46829 File
    46830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46831 packages/chimerax/map/volume.py", line 1243, in
    46832 matrix_indices_to_xyz_transform 
    46833 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46834 File
    46835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46836 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46837 r = self.subregion(step, subregion) 
    46838 File
    46839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46840 packages/chimerax/map/volume.py", line 1558, in subregion 
    46841 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46842 AttributeError: 'NoneType' object has no attribute 'size' 
    46843  
    46844 AttributeError: 'NoneType' object has no attribute 'size' 
    46845  
    46846 File
    46847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46848 packages/chimerax/map/volume.py", line 1558, in subregion 
    46849 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46850  
    46851 See log for complete Python traceback. 
    46852  
    46853 Traceback (most recent call last): 
    46854 File
    46855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46856 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46857 drew = self.draw_new_frame() 
    46858 File
    46859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46860 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46861 surface.update_clip_caps(view) 
    46862 File
    46863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46864 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46865 subdivision = settings.clipping_cap_subdivision) 
    46866 File
    46867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46868 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46869 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46870 File
    46871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46872 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46873 cm.set_geometry(varray, narray, tarray) 
    46874 File
    46875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46876 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46877 arv() 
    46878 File
    46879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46880 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46881 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46882 File
    46883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46884 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46885 s.vertex_colors = self.vertex_colors(report_stats) 
    46886 File
    46887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46888 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46889 values, outside = self.volume_values() 
    46890 File
    46891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46892 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46893 return self.offset_values(v, n, tf) 
    46894 File
    46895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46896 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46897 values, outside = self.vertex_values(v, xf) 
    46898 File
    46899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46900 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46901 out_of_bounds_list = True) 
    46902 File
    46903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46904 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46905 subregion, step) 
    46906 File
    46907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46908 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46909 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46910 File
    46911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46912 packages/chimerax/map/volume.py", line 1243, in
    46913 matrix_indices_to_xyz_transform 
    46914 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46915 File
    46916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46917 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46918 r = self.subregion(step, subregion) 
    46919 File
    46920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46921 packages/chimerax/map/volume.py", line 1558, in subregion 
    46922 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46923 AttributeError: 'NoneType' object has no attribute 'size' 
    46924  
    46925 AttributeError: 'NoneType' object has no attribute 'size' 
    46926  
    46927 File
    46928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46929 packages/chimerax/map/volume.py", line 1558, in subregion 
    46930 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    46931  
    46932 See log for complete Python traceback. 
    46933  
    46934 Traceback (most recent call last): 
    46935 File
    46936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46937 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    46938 drew = self.draw_new_frame() 
    46939 File
    46940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46941 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    46942 surface.update_clip_caps(view) 
    46943 File
    46944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46945 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    46946 subdivision = settings.clipping_cap_subdivision) 
    46947 File
    46948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46949 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    46950 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    46951 File
    46952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46953 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    46954 cm.set_geometry(varray, narray, tarray) 
    46955 File
    46956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46957 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    46958 arv() 
    46959 File
    46960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46961 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    46962 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    46963 File
    46964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46965 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    46966 s.vertex_colors = self.vertex_colors(report_stats) 
    46967 File
    46968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46969 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    46970 values, outside = self.volume_values() 
    46971 File
    46972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46973 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    46974 return self.offset_values(v, n, tf) 
    46975 File
    46976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46977 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    46978 values, outside = self.vertex_values(v, xf) 
    46979 File
    46980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46981 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    46982 out_of_bounds_list = True) 
    46983 File
    46984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46985 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    46986 subregion, step) 
    46987 File
    46988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46989 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    46990 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    46991 File
    46992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46993 packages/chimerax/map/volume.py", line 1243, in
    46994 matrix_indices_to_xyz_transform 
    46995 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    46996 File
    46997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    46998 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    46999 r = self.subregion(step, subregion) 
    47000 File
    47001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47002 packages/chimerax/map/volume.py", line 1558, in subregion 
    47003 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47004 AttributeError: 'NoneType' object has no attribute 'size' 
    47005  
    47006 AttributeError: 'NoneType' object has no attribute 'size' 
    47007  
    47008 File
    47009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47010 packages/chimerax/map/volume.py", line 1558, in subregion 
    47011 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47012  
    47013 See log for complete Python traceback. 
    47014  
    47015 Traceback (most recent call last): 
    47016 File
    47017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47018 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47019 drew = self.draw_new_frame() 
    47020 File
    47021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47022 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47023 surface.update_clip_caps(view) 
    47024 File
    47025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47026 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47027 subdivision = settings.clipping_cap_subdivision) 
    47028 File
    47029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47030 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47031 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47032 File
    47033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47034 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47035 cm.set_geometry(varray, narray, tarray) 
    47036 File
    47037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47038 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47039 arv() 
    47040 File
    47041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47042 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47043 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47044 File
    47045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47046 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47047 s.vertex_colors = self.vertex_colors(report_stats) 
    47048 File
    47049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47050 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47051 values, outside = self.volume_values() 
    47052 File
    47053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47054 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47055 return self.offset_values(v, n, tf) 
    47056 File
    47057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47058 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47059 values, outside = self.vertex_values(v, xf) 
    47060 File
    47061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47062 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47063 out_of_bounds_list = True) 
    47064 File
    47065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47066 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47067 subregion, step) 
    47068 File
    47069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47070 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47071 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47072 File
    47073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47074 packages/chimerax/map/volume.py", line 1243, in
    47075 matrix_indices_to_xyz_transform 
    47076 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47077 File
    47078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47079 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47080 r = self.subregion(step, subregion) 
    47081 File
    47082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47083 packages/chimerax/map/volume.py", line 1558, in subregion 
    47084 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47085 AttributeError: 'NoneType' object has no attribute 'size' 
    47086  
    47087 AttributeError: 'NoneType' object has no attribute 'size' 
    47088  
    47089 File
    47090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47091 packages/chimerax/map/volume.py", line 1558, in subregion 
    47092 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47093  
    47094 See log for complete Python traceback. 
    47095  
    47096 Traceback (most recent call last): 
    47097 File
    47098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47099 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47100 drew = self.draw_new_frame() 
    47101 File
    47102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47103 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47104 surface.update_clip_caps(view) 
    47105 File
    47106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47107 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47108 subdivision = settings.clipping_cap_subdivision) 
    47109 File
    47110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47111 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47112 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47113 File
    47114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47115 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47116 cm.set_geometry(varray, narray, tarray) 
    47117 File
    47118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47119 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47120 arv() 
    47121 File
    47122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47123 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47124 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47125 File
    47126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47127 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47128 s.vertex_colors = self.vertex_colors(report_stats) 
    47129 File
    47130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47131 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47132 values, outside = self.volume_values() 
    47133 File
    47134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47135 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47136 return self.offset_values(v, n, tf) 
    47137 File
    47138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47139 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47140 values, outside = self.vertex_values(v, xf) 
    47141 File
    47142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47143 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47144 out_of_bounds_list = True) 
    47145 File
    47146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47147 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47148 subregion, step) 
    47149 File
    47150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47151 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47152 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47153 File
    47154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47155 packages/chimerax/map/volume.py", line 1243, in
    47156 matrix_indices_to_xyz_transform 
    47157 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47158 File
    47159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47160 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47161 r = self.subregion(step, subregion) 
    47162 File
    47163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47164 packages/chimerax/map/volume.py", line 1558, in subregion 
    47165 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47166 AttributeError: 'NoneType' object has no attribute 'size' 
    47167  
    47168 AttributeError: 'NoneType' object has no attribute 'size' 
    47169  
    47170 File
    47171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47172 packages/chimerax/map/volume.py", line 1558, in subregion 
    47173 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47174  
    47175 See log for complete Python traceback. 
    47176  
    47177 Traceback (most recent call last): 
    47178 File
    47179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47180 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47181 drew = self.draw_new_frame() 
    47182 File
    47183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47184 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47185 surface.update_clip_caps(view) 
    47186 File
    47187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47188 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47189 subdivision = settings.clipping_cap_subdivision) 
    47190 File
    47191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47192 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47193 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47194 File
    47195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47196 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47197 cm.set_geometry(varray, narray, tarray) 
    47198 File
    47199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47200 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47201 arv() 
    47202 File
    47203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47204 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47205 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47206 File
    47207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47208 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47209 s.vertex_colors = self.vertex_colors(report_stats) 
    47210 File
    47211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47212 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47213 values, outside = self.volume_values() 
    47214 File
    47215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47216 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47217 return self.offset_values(v, n, tf) 
    47218 File
    47219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47220 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47221 values, outside = self.vertex_values(v, xf) 
    47222 File
    47223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47224 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47225 out_of_bounds_list = True) 
    47226 File
    47227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47228 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47229 subregion, step) 
    47230 File
    47231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47232 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47233 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47234 File
    47235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47236 packages/chimerax/map/volume.py", line 1243, in
    47237 matrix_indices_to_xyz_transform 
    47238 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47239 File
    47240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47241 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47242 r = self.subregion(step, subregion) 
    47243 File
    47244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47245 packages/chimerax/map/volume.py", line 1558, in subregion 
    47246 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47247 AttributeError: 'NoneType' object has no attribute 'size' 
    47248  
    47249 AttributeError: 'NoneType' object has no attribute 'size' 
    47250  
    47251 File
    47252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47253 packages/chimerax/map/volume.py", line 1558, in subregion 
    47254 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47255  
    47256 See log for complete Python traceback. 
    47257  
    47258 Traceback (most recent call last): 
    47259 File
    47260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47261 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47262 drew = self.draw_new_frame() 
    47263 File
    47264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47265 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47266 surface.update_clip_caps(view) 
    47267 File
    47268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47269 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47270 subdivision = settings.clipping_cap_subdivision) 
    47271 File
    47272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47273 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47274 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47275 File
    47276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47277 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47278 cm.set_geometry(varray, narray, tarray) 
    47279 File
    47280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47281 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47282 arv() 
    47283 File
    47284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47285 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47286 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47287 File
    47288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47289 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47290 s.vertex_colors = self.vertex_colors(report_stats) 
    47291 File
    47292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47293 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47294 values, outside = self.volume_values() 
    47295 File
    47296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47297 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47298 return self.offset_values(v, n, tf) 
    47299 File
    47300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47301 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47302 values, outside = self.vertex_values(v, xf) 
    47303 File
    47304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47305 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47306 out_of_bounds_list = True) 
    47307 File
    47308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47309 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47310 subregion, step) 
    47311 File
    47312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47313 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47314 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47315 File
    47316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47317 packages/chimerax/map/volume.py", line 1243, in
    47318 matrix_indices_to_xyz_transform 
    47319 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47320 File
    47321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47322 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47323 r = self.subregion(step, subregion) 
    47324 File
    47325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47326 packages/chimerax/map/volume.py", line 1558, in subregion 
    47327 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47328 AttributeError: 'NoneType' object has no attribute 'size' 
    47329  
    47330 AttributeError: 'NoneType' object has no attribute 'size' 
    47331  
    47332 File
    47333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47334 packages/chimerax/map/volume.py", line 1558, in subregion 
    47335 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47336  
    47337 See log for complete Python traceback. 
    47338  
    47339 Traceback (most recent call last): 
    47340 File
    47341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47342 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47343 drew = self.draw_new_frame() 
    47344 File
    47345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47346 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47347 surface.update_clip_caps(view) 
    47348 File
    47349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47350 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47351 subdivision = settings.clipping_cap_subdivision) 
    47352 File
    47353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47354 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47355 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47356 File
    47357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47358 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47359 cm.set_geometry(varray, narray, tarray) 
    47360 File
    47361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47362 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47363 arv() 
    47364 File
    47365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47366 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47367 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47368 File
    47369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47370 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47371 s.vertex_colors = self.vertex_colors(report_stats) 
    47372 File
    47373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47374 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47375 values, outside = self.volume_values() 
    47376 File
    47377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47378 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47379 return self.offset_values(v, n, tf) 
    47380 File
    47381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47382 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47383 values, outside = self.vertex_values(v, xf) 
    47384 File
    47385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47386 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47387 out_of_bounds_list = True) 
    47388 File
    47389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47390 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47391 subregion, step) 
    47392 File
    47393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47394 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47395 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47396 File
    47397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47398 packages/chimerax/map/volume.py", line 1243, in
    47399 matrix_indices_to_xyz_transform 
    47400 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47401 File
    47402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47403 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47404 r = self.subregion(step, subregion) 
    47405 File
    47406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47407 packages/chimerax/map/volume.py", line 1558, in subregion 
    47408 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47409 AttributeError: 'NoneType' object has no attribute 'size' 
    47410  
    47411 AttributeError: 'NoneType' object has no attribute 'size' 
    47412  
    47413 File
    47414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47415 packages/chimerax/map/volume.py", line 1558, in subregion 
    47416 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47417  
    47418 See log for complete Python traceback. 
    47419  
    47420 Traceback (most recent call last): 
    47421 File
    47422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47423 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47424 drew = self.draw_new_frame() 
    47425 File
    47426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47427 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47428 surface.update_clip_caps(view) 
    47429 File
    47430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47431 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47432 subdivision = settings.clipping_cap_subdivision) 
    47433 File
    47434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47435 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47436 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47437 File
    47438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47439 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47440 cm.set_geometry(varray, narray, tarray) 
    47441 File
    47442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47443 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47444 arv() 
    47445 File
    47446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47447 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47448 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47449 File
    47450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47451 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47452 s.vertex_colors = self.vertex_colors(report_stats) 
    47453 File
    47454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47455 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47456 values, outside = self.volume_values() 
    47457 File
    47458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47459 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47460 return self.offset_values(v, n, tf) 
    47461 File
    47462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47463 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47464 values, outside = self.vertex_values(v, xf) 
    47465 File
    47466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47467 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47468 out_of_bounds_list = True) 
    47469 File
    47470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47471 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47472 subregion, step) 
    47473 File
    47474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47475 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47476 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47477 File
    47478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47479 packages/chimerax/map/volume.py", line 1243, in
    47480 matrix_indices_to_xyz_transform 
    47481 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47482 File
    47483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47484 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47485 r = self.subregion(step, subregion) 
    47486 File
    47487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47488 packages/chimerax/map/volume.py", line 1558, in subregion 
    47489 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47490 AttributeError: 'NoneType' object has no attribute 'size' 
    47491  
    47492 AttributeError: 'NoneType' object has no attribute 'size' 
    47493  
    47494 File
    47495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47496 packages/chimerax/map/volume.py", line 1558, in subregion 
    47497 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47498  
    47499 See log for complete Python traceback. 
    47500  
    47501 Traceback (most recent call last): 
    47502 File
    47503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47504 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47505 drew = self.draw_new_frame() 
    47506 File
    47507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47508 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47509 surface.update_clip_caps(view) 
    47510 File
    47511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47512 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47513 subdivision = settings.clipping_cap_subdivision) 
    47514 File
    47515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47516 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47517 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47518 File
    47519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47520 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47521 cm.set_geometry(varray, narray, tarray) 
    47522 File
    47523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47524 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47525 arv() 
    47526 File
    47527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47528 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47529 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47530 File
    47531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47532 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47533 s.vertex_colors = self.vertex_colors(report_stats) 
    47534 File
    47535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47536 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47537 values, outside = self.volume_values() 
    47538 File
    47539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47540 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47541 return self.offset_values(v, n, tf) 
    47542 File
    47543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47544 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47545 values, outside = self.vertex_values(v, xf) 
    47546 File
    47547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47548 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47549 out_of_bounds_list = True) 
    47550 File
    47551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47552 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47553 subregion, step) 
    47554 File
    47555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47556 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47557 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47558 File
    47559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47560 packages/chimerax/map/volume.py", line 1243, in
    47561 matrix_indices_to_xyz_transform 
    47562 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47563 File
    47564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47565 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47566 r = self.subregion(step, subregion) 
    47567 File
    47568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47569 packages/chimerax/map/volume.py", line 1558, in subregion 
    47570 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47571 AttributeError: 'NoneType' object has no attribute 'size' 
    47572  
    47573 AttributeError: 'NoneType' object has no attribute 'size' 
    47574  
    47575 File
    47576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47577 packages/chimerax/map/volume.py", line 1558, in subregion 
    47578 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47579  
    47580 See log for complete Python traceback. 
    47581  
    47582 Traceback (most recent call last): 
    47583 File
    47584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47585 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47586 drew = self.draw_new_frame() 
    47587 File
    47588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47589 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47590 surface.update_clip_caps(view) 
    47591 File
    47592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47593 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47594 subdivision = settings.clipping_cap_subdivision) 
    47595 File
    47596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47597 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47598 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47599 File
    47600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47601 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47602 cm.set_geometry(varray, narray, tarray) 
    47603 File
    47604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47605 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47606 arv() 
    47607 File
    47608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47609 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47610 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47611 File
    47612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47613 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47614 s.vertex_colors = self.vertex_colors(report_stats) 
    47615 File
    47616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47617 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47618 values, outside = self.volume_values() 
    47619 File
    47620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47621 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47622 return self.offset_values(v, n, tf) 
    47623 File
    47624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47625 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47626 values, outside = self.vertex_values(v, xf) 
    47627 File
    47628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47629 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47630 out_of_bounds_list = True) 
    47631 File
    47632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47633 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47634 subregion, step) 
    47635 File
    47636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47637 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47638 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47639 File
    47640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47641 packages/chimerax/map/volume.py", line 1243, in
    47642 matrix_indices_to_xyz_transform 
    47643 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47644 File
    47645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47646 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47647 r = self.subregion(step, subregion) 
    47648 File
    47649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47650 packages/chimerax/map/volume.py", line 1558, in subregion 
    47651 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47652 AttributeError: 'NoneType' object has no attribute 'size' 
    47653  
    47654 AttributeError: 'NoneType' object has no attribute 'size' 
    47655  
    47656 File
    47657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47658 packages/chimerax/map/volume.py", line 1558, in subregion 
    47659 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47660  
    47661 See log for complete Python traceback. 
    47662  
    47663 Traceback (most recent call last): 
    47664 File
    47665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47666 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47667 drew = self.draw_new_frame() 
    47668 File
    47669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47670 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47671 surface.update_clip_caps(view) 
    47672 File
    47673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47674 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47675 subdivision = settings.clipping_cap_subdivision) 
    47676 File
    47677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47678 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47679 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47680 File
    47681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47682 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47683 cm.set_geometry(varray, narray, tarray) 
    47684 File
    47685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47686 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47687 arv() 
    47688 File
    47689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47690 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47691 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47692 File
    47693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47694 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47695 s.vertex_colors = self.vertex_colors(report_stats) 
    47696 File
    47697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47698 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47699 values, outside = self.volume_values() 
    47700 File
    47701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47702 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47703 return self.offset_values(v, n, tf) 
    47704 File
    47705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47706 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47707 values, outside = self.vertex_values(v, xf) 
    47708 File
    47709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47710 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47711 out_of_bounds_list = True) 
    47712 File
    47713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47714 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47715 subregion, step) 
    47716 File
    47717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47718 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47719 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47720 File
    47721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47722 packages/chimerax/map/volume.py", line 1243, in
    47723 matrix_indices_to_xyz_transform 
    47724 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47725 File
    47726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47727 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47728 r = self.subregion(step, subregion) 
    47729 File
    47730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47731 packages/chimerax/map/volume.py", line 1558, in subregion 
    47732 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47733 AttributeError: 'NoneType' object has no attribute 'size' 
    47734  
    47735 AttributeError: 'NoneType' object has no attribute 'size' 
    47736  
    47737 File
    47738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47739 packages/chimerax/map/volume.py", line 1558, in subregion 
    47740 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47741  
    47742 See log for complete Python traceback. 
    47743  
    47744 Traceback (most recent call last): 
    47745 File
    47746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47747 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47748 drew = self.draw_new_frame() 
    47749 File
    47750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47751 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47752 surface.update_clip_caps(view) 
    47753 File
    47754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47755 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47756 subdivision = settings.clipping_cap_subdivision) 
    47757 File
    47758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47759 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47760 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47761 File
    47762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47763 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47764 cm.set_geometry(varray, narray, tarray) 
    47765 File
    47766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47767 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47768 arv() 
    47769 File
    47770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47771 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47772 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47773 File
    47774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47775 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47776 s.vertex_colors = self.vertex_colors(report_stats) 
    47777 File
    47778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47779 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47780 values, outside = self.volume_values() 
    47781 File
    47782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47783 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47784 return self.offset_values(v, n, tf) 
    47785 File
    47786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47787 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47788 values, outside = self.vertex_values(v, xf) 
    47789 File
    47790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47791 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47792 out_of_bounds_list = True) 
    47793 File
    47794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47795 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47796 subregion, step) 
    47797 File
    47798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47799 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47800 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47801 File
    47802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47803 packages/chimerax/map/volume.py", line 1243, in
    47804 matrix_indices_to_xyz_transform 
    47805 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47806 File
    47807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47808 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47809 r = self.subregion(step, subregion) 
    47810 File
    47811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47812 packages/chimerax/map/volume.py", line 1558, in subregion 
    47813 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47814 AttributeError: 'NoneType' object has no attribute 'size' 
    47815  
    47816 AttributeError: 'NoneType' object has no attribute 'size' 
    47817  
    47818 File
    47819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47820 packages/chimerax/map/volume.py", line 1558, in subregion 
    47821 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47822  
    47823 See log for complete Python traceback. 
    47824  
    47825 Traceback (most recent call last): 
    47826 File
    47827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47828 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47829 drew = self.draw_new_frame() 
    47830 File
    47831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47832 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47833 surface.update_clip_caps(view) 
    47834 File
    47835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47836 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47837 subdivision = settings.clipping_cap_subdivision) 
    47838 File
    47839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47840 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47841 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47842 File
    47843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47844 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47845 cm.set_geometry(varray, narray, tarray) 
    47846 File
    47847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47848 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47849 arv() 
    47850 File
    47851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47852 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47853 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47854 File
    47855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47856 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47857 s.vertex_colors = self.vertex_colors(report_stats) 
    47858 File
    47859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47860 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47861 values, outside = self.volume_values() 
    47862 File
    47863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47864 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47865 return self.offset_values(v, n, tf) 
    47866 File
    47867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47868 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47869 values, outside = self.vertex_values(v, xf) 
    47870 File
    47871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47872 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47873 out_of_bounds_list = True) 
    47874 File
    47875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47876 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47877 subregion, step) 
    47878 File
    47879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47880 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47881 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47882 File
    47883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47884 packages/chimerax/map/volume.py", line 1243, in
    47885 matrix_indices_to_xyz_transform 
    47886 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47887 File
    47888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47889 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47890 r = self.subregion(step, subregion) 
    47891 File
    47892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47893 packages/chimerax/map/volume.py", line 1558, in subregion 
    47894 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47895 AttributeError: 'NoneType' object has no attribute 'size' 
    47896  
    47897 AttributeError: 'NoneType' object has no attribute 'size' 
    47898  
    47899 File
    47900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47901 packages/chimerax/map/volume.py", line 1558, in subregion 
    47902 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47903  
    47904 See log for complete Python traceback. 
    47905  
    47906 Traceback (most recent call last): 
    47907 File
    47908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47909 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47910 drew = self.draw_new_frame() 
    47911 File
    47912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47913 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47914 surface.update_clip_caps(view) 
    47915 File
    47916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47917 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47918 subdivision = settings.clipping_cap_subdivision) 
    47919 File
    47920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47921 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    47922 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    47923 File
    47924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47925 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    47926 cm.set_geometry(varray, narray, tarray) 
    47927 File
    47928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47929 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    47930 arv() 
    47931 File
    47932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47933 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    47934 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    47935 File
    47936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47937 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    47938 s.vertex_colors = self.vertex_colors(report_stats) 
    47939 File
    47940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47941 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    47942 values, outside = self.volume_values() 
    47943 File
    47944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47945 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    47946 return self.offset_values(v, n, tf) 
    47947 File
    47948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47949 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    47950 values, outside = self.vertex_values(v, xf) 
    47951 File
    47952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47953 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    47954 out_of_bounds_list = True) 
    47955 File
    47956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47957 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    47958 subregion, step) 
    47959 File
    47960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47961 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    47962 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    47963 File
    47964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47965 packages/chimerax/map/volume.py", line 1243, in
    47966 matrix_indices_to_xyz_transform 
    47967 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    47968 File
    47969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47970 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    47971 r = self.subregion(step, subregion) 
    47972 File
    47973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47974 packages/chimerax/map/volume.py", line 1558, in subregion 
    47975 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47976 AttributeError: 'NoneType' object has no attribute 'size' 
    47977  
    47978 AttributeError: 'NoneType' object has no attribute 'size' 
    47979  
    47980 File
    47981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47982 packages/chimerax/map/volume.py", line 1558, in subregion 
    47983 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    47984  
    47985 See log for complete Python traceback. 
    47986  
    47987 Traceback (most recent call last): 
    47988 File
    47989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47990 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    47991 drew = self.draw_new_frame() 
    47992 File
    47993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47994 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    47995 surface.update_clip_caps(view) 
    47996 File
    47997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    47998 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    47999 subdivision = settings.clipping_cap_subdivision) 
    48000 File
    48001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48002 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48003 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48004 File
    48005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48006 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48007 cm.set_geometry(varray, narray, tarray) 
    48008 File
    48009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48010 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48011 arv() 
    48012 File
    48013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48014 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48015 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48016 File
    48017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48018 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48019 s.vertex_colors = self.vertex_colors(report_stats) 
    48020 File
    48021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48022 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48023 values, outside = self.volume_values() 
    48024 File
    48025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48026 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48027 return self.offset_values(v, n, tf) 
    48028 File
    48029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48030 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48031 values, outside = self.vertex_values(v, xf) 
    48032 File
    48033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48034 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48035 out_of_bounds_list = True) 
    48036 File
    48037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48038 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48039 subregion, step) 
    48040 File
    48041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48042 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48043 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48044 File
    48045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48046 packages/chimerax/map/volume.py", line 1243, in
    48047 matrix_indices_to_xyz_transform 
    48048 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48049 File
    48050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48051 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48052 r = self.subregion(step, subregion) 
    48053 File
    48054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48055 packages/chimerax/map/volume.py", line 1558, in subregion 
    48056 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48057 AttributeError: 'NoneType' object has no attribute 'size' 
    48058  
    48059 AttributeError: 'NoneType' object has no attribute 'size' 
    48060  
    48061 File
    48062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48063 packages/chimerax/map/volume.py", line 1558, in subregion 
    48064 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48065  
    48066 See log for complete Python traceback. 
    48067  
    48068 Traceback (most recent call last): 
    48069 File
    48070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48071 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48072 drew = self.draw_new_frame() 
    48073 File
    48074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48075 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48076 surface.update_clip_caps(view) 
    48077 File
    48078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48079 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48080 subdivision = settings.clipping_cap_subdivision) 
    48081 File
    48082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48083 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48084 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48085 File
    48086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48087 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48088 cm.set_geometry(varray, narray, tarray) 
    48089 File
    48090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48091 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48092 arv() 
    48093 File
    48094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48095 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48096 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48097 File
    48098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48099 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48100 s.vertex_colors = self.vertex_colors(report_stats) 
    48101 File
    48102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48103 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48104 values, outside = self.volume_values() 
    48105 File
    48106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48107 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48108 return self.offset_values(v, n, tf) 
    48109 File
    48110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48111 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48112 values, outside = self.vertex_values(v, xf) 
    48113 File
    48114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48115 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48116 out_of_bounds_list = True) 
    48117 File
    48118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48119 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48120 subregion, step) 
    48121 File
    48122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48123 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48124 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48125 File
    48126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48127 packages/chimerax/map/volume.py", line 1243, in
    48128 matrix_indices_to_xyz_transform 
    48129 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48130 File
    48131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48132 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48133 r = self.subregion(step, subregion) 
    48134 File
    48135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48136 packages/chimerax/map/volume.py", line 1558, in subregion 
    48137 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48138 AttributeError: 'NoneType' object has no attribute 'size' 
    48139  
    48140 AttributeError: 'NoneType' object has no attribute 'size' 
    48141  
    48142 File
    48143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48144 packages/chimerax/map/volume.py", line 1558, in subregion 
    48145 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48146  
    48147 See log for complete Python traceback. 
    48148  
    48149 Traceback (most recent call last): 
    48150 File
    48151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48152 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48153 drew = self.draw_new_frame() 
    48154 File
    48155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48156 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48157 surface.update_clip_caps(view) 
    48158 File
    48159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48160 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48161 subdivision = settings.clipping_cap_subdivision) 
    48162 File
    48163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48164 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48165 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48166 File
    48167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48168 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48169 cm.set_geometry(varray, narray, tarray) 
    48170 File
    48171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48172 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48173 arv() 
    48174 File
    48175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48176 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48177 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48178 File
    48179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48180 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48181 s.vertex_colors = self.vertex_colors(report_stats) 
    48182 File
    48183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48184 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48185 values, outside = self.volume_values() 
    48186 File
    48187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48188 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48189 return self.offset_values(v, n, tf) 
    48190 File
    48191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48192 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48193 values, outside = self.vertex_values(v, xf) 
    48194 File
    48195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48196 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48197 out_of_bounds_list = True) 
    48198 File
    48199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48200 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48201 subregion, step) 
    48202 File
    48203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48204 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48205 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48206 File
    48207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48208 packages/chimerax/map/volume.py", line 1243, in
    48209 matrix_indices_to_xyz_transform 
    48210 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48211 File
    48212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48213 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48214 r = self.subregion(step, subregion) 
    48215 File
    48216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48217 packages/chimerax/map/volume.py", line 1558, in subregion 
    48218 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48219 AttributeError: 'NoneType' object has no attribute 'size' 
    48220  
    48221 AttributeError: 'NoneType' object has no attribute 'size' 
    48222  
    48223 File
    48224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48225 packages/chimerax/map/volume.py", line 1558, in subregion 
    48226 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48227  
    48228 See log for complete Python traceback. 
    48229  
    48230 Traceback (most recent call last): 
    48231 File
    48232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48233 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48234 drew = self.draw_new_frame() 
    48235 File
    48236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48237 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48238 surface.update_clip_caps(view) 
    48239 File
    48240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48241 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48242 subdivision = settings.clipping_cap_subdivision) 
    48243 File
    48244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48245 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48246 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48247 File
    48248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48249 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48250 cm.set_geometry(varray, narray, tarray) 
    48251 File
    48252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48253 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48254 arv() 
    48255 File
    48256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48257 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48258 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48259 File
    48260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48261 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48262 s.vertex_colors = self.vertex_colors(report_stats) 
    48263 File
    48264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48265 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48266 values, outside = self.volume_values() 
    48267 File
    48268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48269 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48270 return self.offset_values(v, n, tf) 
    48271 File
    48272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48273 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48274 values, outside = self.vertex_values(v, xf) 
    48275 File
    48276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48277 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48278 out_of_bounds_list = True) 
    48279 File
    48280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48281 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48282 subregion, step) 
    48283 File
    48284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48285 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48286 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48287 File
    48288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48289 packages/chimerax/map/volume.py", line 1243, in
    48290 matrix_indices_to_xyz_transform 
    48291 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48292 File
    48293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48294 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48295 r = self.subregion(step, subregion) 
    48296 File
    48297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48298 packages/chimerax/map/volume.py", line 1558, in subregion 
    48299 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48300 AttributeError: 'NoneType' object has no attribute 'size' 
    48301  
    48302 AttributeError: 'NoneType' object has no attribute 'size' 
    48303  
    48304 File
    48305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48306 packages/chimerax/map/volume.py", line 1558, in subregion 
    48307 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48308  
    48309 See log for complete Python traceback. 
    48310  
    48311 Traceback (most recent call last): 
    48312 File
    48313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48314 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48315 drew = self.draw_new_frame() 
    48316 File
    48317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48318 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48319 surface.update_clip_caps(view) 
    48320 File
    48321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48322 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48323 subdivision = settings.clipping_cap_subdivision) 
    48324 File
    48325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48326 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48327 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48328 File
    48329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48330 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48331 cm.set_geometry(varray, narray, tarray) 
    48332 File
    48333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48334 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48335 arv() 
    48336 File
    48337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48338 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48339 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48340 File
    48341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48342 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48343 s.vertex_colors = self.vertex_colors(report_stats) 
    48344 File
    48345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48346 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48347 values, outside = self.volume_values() 
    48348 File
    48349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48350 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48351 return self.offset_values(v, n, tf) 
    48352 File
    48353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48354 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48355 values, outside = self.vertex_values(v, xf) 
    48356 File
    48357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48358 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48359 out_of_bounds_list = True) 
    48360 File
    48361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48362 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48363 subregion, step) 
    48364 File
    48365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48366 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48367 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48368 File
    48369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48370 packages/chimerax/map/volume.py", line 1243, in
    48371 matrix_indices_to_xyz_transform 
    48372 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48373 File
    48374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48375 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48376 r = self.subregion(step, subregion) 
    48377 File
    48378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48379 packages/chimerax/map/volume.py", line 1558, in subregion 
    48380 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48381 AttributeError: 'NoneType' object has no attribute 'size' 
    48382  
    48383 AttributeError: 'NoneType' object has no attribute 'size' 
    48384  
    48385 File
    48386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48387 packages/chimerax/map/volume.py", line 1558, in subregion 
    48388 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48389  
    48390 See log for complete Python traceback. 
    48391  
    48392 Traceback (most recent call last): 
    48393 File
    48394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48395 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48396 drew = self.draw_new_frame() 
    48397 File
    48398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48399 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48400 surface.update_clip_caps(view) 
    48401 File
    48402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48403 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48404 subdivision = settings.clipping_cap_subdivision) 
    48405 File
    48406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48407 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48408 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48409 File
    48410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48411 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48412 cm.set_geometry(varray, narray, tarray) 
    48413 File
    48414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48415 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48416 arv() 
    48417 File
    48418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48419 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48420 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48421 File
    48422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48423 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48424 s.vertex_colors = self.vertex_colors(report_stats) 
    48425 File
    48426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48427 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48428 values, outside = self.volume_values() 
    48429 File
    48430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48431 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48432 return self.offset_values(v, n, tf) 
    48433 File
    48434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48435 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48436 values, outside = self.vertex_values(v, xf) 
    48437 File
    48438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48439 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48440 out_of_bounds_list = True) 
    48441 File
    48442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48443 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48444 subregion, step) 
    48445 File
    48446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48447 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48448 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48449 File
    48450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48451 packages/chimerax/map/volume.py", line 1243, in
    48452 matrix_indices_to_xyz_transform 
    48453 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48454 File
    48455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48456 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48457 r = self.subregion(step, subregion) 
    48458 File
    48459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48460 packages/chimerax/map/volume.py", line 1558, in subregion 
    48461 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48462 AttributeError: 'NoneType' object has no attribute 'size' 
    48463  
    48464 AttributeError: 'NoneType' object has no attribute 'size' 
    48465  
    48466 File
    48467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48468 packages/chimerax/map/volume.py", line 1558, in subregion 
    48469 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48470  
    48471 See log for complete Python traceback. 
    48472  
    48473 Traceback (most recent call last): 
    48474 File
    48475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48476 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48477 drew = self.draw_new_frame() 
    48478 File
    48479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48480 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48481 surface.update_clip_caps(view) 
    48482 File
    48483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48484 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48485 subdivision = settings.clipping_cap_subdivision) 
    48486 File
    48487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48488 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48489 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48490 File
    48491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48492 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48493 cm.set_geometry(varray, narray, tarray) 
    48494 File
    48495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48496 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48497 arv() 
    48498 File
    48499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48500 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48501 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48502 File
    48503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48504 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48505 s.vertex_colors = self.vertex_colors(report_stats) 
    48506 File
    48507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48508 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48509 values, outside = self.volume_values() 
    48510 File
    48511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48512 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48513 return self.offset_values(v, n, tf) 
    48514 File
    48515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48516 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48517 values, outside = self.vertex_values(v, xf) 
    48518 File
    48519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48520 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48521 out_of_bounds_list = True) 
    48522 File
    48523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48524 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48525 subregion, step) 
    48526 File
    48527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48528 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48529 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48530 File
    48531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48532 packages/chimerax/map/volume.py", line 1243, in
    48533 matrix_indices_to_xyz_transform 
    48534 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48535 File
    48536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48537 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48538 r = self.subregion(step, subregion) 
    48539 File
    48540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48541 packages/chimerax/map/volume.py", line 1558, in subregion 
    48542 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48543 AttributeError: 'NoneType' object has no attribute 'size' 
    48544  
    48545 AttributeError: 'NoneType' object has no attribute 'size' 
    48546  
    48547 File
    48548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48549 packages/chimerax/map/volume.py", line 1558, in subregion 
    48550 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48551  
    48552 See log for complete Python traceback. 
    48553  
    48554 Traceback (most recent call last): 
    48555 File
    48556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48557 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48558 drew = self.draw_new_frame() 
    48559 File
    48560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48561 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48562 surface.update_clip_caps(view) 
    48563 File
    48564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48565 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48566 subdivision = settings.clipping_cap_subdivision) 
    48567 File
    48568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48569 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48570 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48571 File
    48572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48573 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48574 cm.set_geometry(varray, narray, tarray) 
    48575 File
    48576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48577 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48578 arv() 
    48579 File
    48580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48581 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48582 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48583 File
    48584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48585 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48586 s.vertex_colors = self.vertex_colors(report_stats) 
    48587 File
    48588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48589 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48590 values, outside = self.volume_values() 
    48591 File
    48592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48593 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48594 return self.offset_values(v, n, tf) 
    48595 File
    48596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48597 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48598 values, outside = self.vertex_values(v, xf) 
    48599 File
    48600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48601 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48602 out_of_bounds_list = True) 
    48603 File
    48604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48605 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48606 subregion, step) 
    48607 File
    48608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48609 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48610 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48611 File
    48612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48613 packages/chimerax/map/volume.py", line 1243, in
    48614 matrix_indices_to_xyz_transform 
    48615 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48616 File
    48617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48618 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48619 r = self.subregion(step, subregion) 
    48620 File
    48621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48622 packages/chimerax/map/volume.py", line 1558, in subregion 
    48623 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48624 AttributeError: 'NoneType' object has no attribute 'size' 
    48625  
    48626 AttributeError: 'NoneType' object has no attribute 'size' 
    48627  
    48628 File
    48629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48630 packages/chimerax/map/volume.py", line 1558, in subregion 
    48631 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48632  
    48633 See log for complete Python traceback. 
    48634  
    48635 Traceback (most recent call last): 
    48636 File
    48637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48638 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48639 drew = self.draw_new_frame() 
    48640 File
    48641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48642 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48643 surface.update_clip_caps(view) 
    48644 File
    48645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48646 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48647 subdivision = settings.clipping_cap_subdivision) 
    48648 File
    48649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48650 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48651 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48652 File
    48653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48654 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48655 cm.set_geometry(varray, narray, tarray) 
    48656 File
    48657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48658 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48659 arv() 
    48660 File
    48661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48662 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48663 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48664 File
    48665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48666 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48667 s.vertex_colors = self.vertex_colors(report_stats) 
    48668 File
    48669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48670 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48671 values, outside = self.volume_values() 
    48672 File
    48673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48674 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48675 return self.offset_values(v, n, tf) 
    48676 File
    48677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48678 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48679 values, outside = self.vertex_values(v, xf) 
    48680 File
    48681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48682 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48683 out_of_bounds_list = True) 
    48684 File
    48685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48686 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48687 subregion, step) 
    48688 File
    48689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48690 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48691 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48692 File
    48693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48694 packages/chimerax/map/volume.py", line 1243, in
    48695 matrix_indices_to_xyz_transform 
    48696 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48697 File
    48698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48699 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48700 r = self.subregion(step, subregion) 
    48701 File
    48702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48703 packages/chimerax/map/volume.py", line 1558, in subregion 
    48704 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48705 AttributeError: 'NoneType' object has no attribute 'size' 
    48706  
    48707 AttributeError: 'NoneType' object has no attribute 'size' 
    48708  
    48709 File
    48710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48711 packages/chimerax/map/volume.py", line 1558, in subregion 
    48712 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48713  
    48714 See log for complete Python traceback. 
    48715  
    48716 Traceback (most recent call last): 
    48717 File
    48718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48719 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48720 drew = self.draw_new_frame() 
    48721 File
    48722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48723 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48724 surface.update_clip_caps(view) 
    48725 File
    48726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48727 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48728 subdivision = settings.clipping_cap_subdivision) 
    48729 File
    48730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48731 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48732 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48733 File
    48734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48735 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48736 cm.set_geometry(varray, narray, tarray) 
    48737 File
    48738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48739 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48740 arv() 
    48741 File
    48742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48743 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48744 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48745 File
    48746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48747 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48748 s.vertex_colors = self.vertex_colors(report_stats) 
    48749 File
    48750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48751 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48752 values, outside = self.volume_values() 
    48753 File
    48754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48755 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48756 return self.offset_values(v, n, tf) 
    48757 File
    48758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48759 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48760 values, outside = self.vertex_values(v, xf) 
    48761 File
    48762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48763 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48764 out_of_bounds_list = True) 
    48765 File
    48766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48767 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48768 subregion, step) 
    48769 File
    48770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48771 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48772 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48773 File
    48774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48775 packages/chimerax/map/volume.py", line 1243, in
    48776 matrix_indices_to_xyz_transform 
    48777 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48778 File
    48779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48780 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48781 r = self.subregion(step, subregion) 
    48782 File
    48783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48784 packages/chimerax/map/volume.py", line 1558, in subregion 
    48785 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48786 AttributeError: 'NoneType' object has no attribute 'size' 
    48787  
    48788 AttributeError: 'NoneType' object has no attribute 'size' 
    48789  
    48790 File
    48791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48792 packages/chimerax/map/volume.py", line 1558, in subregion 
    48793 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48794  
    48795 See log for complete Python traceback. 
    48796  
    48797 Traceback (most recent call last): 
    48798 File
    48799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48800 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48801 drew = self.draw_new_frame() 
    48802 File
    48803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48804 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48805 surface.update_clip_caps(view) 
    48806 File
    48807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48808 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48809 subdivision = settings.clipping_cap_subdivision) 
    48810 File
    48811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48812 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48813 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48814 File
    48815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48816 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48817 cm.set_geometry(varray, narray, tarray) 
    48818 File
    48819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48820 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48821 arv() 
    48822 File
    48823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48824 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48825 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48826 File
    48827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48828 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48829 s.vertex_colors = self.vertex_colors(report_stats) 
    48830 File
    48831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48832 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48833 values, outside = self.volume_values() 
    48834 File
    48835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48836 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48837 return self.offset_values(v, n, tf) 
    48838 File
    48839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48840 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48841 values, outside = self.vertex_values(v, xf) 
    48842 File
    48843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48844 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48845 out_of_bounds_list = True) 
    48846 File
    48847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48848 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48849 subregion, step) 
    48850 File
    48851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48852 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48853 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48854 File
    48855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48856 packages/chimerax/map/volume.py", line 1243, in
    48857 matrix_indices_to_xyz_transform 
    48858 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48859 File
    48860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48861 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48862 r = self.subregion(step, subregion) 
    48863 File
    48864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48865 packages/chimerax/map/volume.py", line 1558, in subregion 
    48866 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48867 AttributeError: 'NoneType' object has no attribute 'size' 
    48868  
    48869 AttributeError: 'NoneType' object has no attribute 'size' 
    48870  
    48871 File
    48872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48873 packages/chimerax/map/volume.py", line 1558, in subregion 
    48874 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48875  
    48876 See log for complete Python traceback. 
    48877  
    48878 Traceback (most recent call last): 
    48879 File
    48880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48881 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48882 drew = self.draw_new_frame() 
    48883 File
    48884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48885 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48886 surface.update_clip_caps(view) 
    48887 File
    48888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48889 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48890 subdivision = settings.clipping_cap_subdivision) 
    48891 File
    48892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48893 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48894 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48895 File
    48896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48897 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48898 cm.set_geometry(varray, narray, tarray) 
    48899 File
    48900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48901 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48902 arv() 
    48903 File
    48904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48905 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48906 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48907 File
    48908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48909 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48910 s.vertex_colors = self.vertex_colors(report_stats) 
    48911 File
    48912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48913 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48914 values, outside = self.volume_values() 
    48915 File
    48916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48917 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48918 return self.offset_values(v, n, tf) 
    48919 File
    48920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48921 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    48922 values, outside = self.vertex_values(v, xf) 
    48923 File
    48924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48925 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    48926 out_of_bounds_list = True) 
    48927 File
    48928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48929 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    48930 subregion, step) 
    48931 File
    48932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48933 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    48934 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    48935 File
    48936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48937 packages/chimerax/map/volume.py", line 1243, in
    48938 matrix_indices_to_xyz_transform 
    48939 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    48940 File
    48941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48942 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    48943 r = self.subregion(step, subregion) 
    48944 File
    48945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48946 packages/chimerax/map/volume.py", line 1558, in subregion 
    48947 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48948 AttributeError: 'NoneType' object has no attribute 'size' 
    48949  
    48950 AttributeError: 'NoneType' object has no attribute 'size' 
    48951  
    48952 File
    48953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48954 packages/chimerax/map/volume.py", line 1558, in subregion 
    48955 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    48956  
    48957 See log for complete Python traceback. 
    48958  
    48959 Traceback (most recent call last): 
    48960 File
    48961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48962 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    48963 drew = self.draw_new_frame() 
    48964 File
    48965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48966 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    48967 surface.update_clip_caps(view) 
    48968 File
    48969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48970 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    48971 subdivision = settings.clipping_cap_subdivision) 
    48972 File
    48973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48974 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    48975 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    48976 File
    48977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48978 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    48979 cm.set_geometry(varray, narray, tarray) 
    48980 File
    48981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48982 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    48983 arv() 
    48984 File
    48985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48986 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    48987 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    48988 File
    48989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48990 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    48991 s.vertex_colors = self.vertex_colors(report_stats) 
    48992 File
    48993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48994 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    48995 values, outside = self.volume_values() 
    48996 File
    48997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    48998 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    48999 return self.offset_values(v, n, tf) 
    49000 File
    49001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49002 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49003 values, outside = self.vertex_values(v, xf) 
    49004 File
    49005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49006 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49007 out_of_bounds_list = True) 
    49008 File
    49009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49010 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49011 subregion, step) 
    49012 File
    49013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49014 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49015 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49016 File
    49017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49018 packages/chimerax/map/volume.py", line 1243, in
    49019 matrix_indices_to_xyz_transform 
    49020 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49021 File
    49022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49023 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49024 r = self.subregion(step, subregion) 
    49025 File
    49026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49027 packages/chimerax/map/volume.py", line 1558, in subregion 
    49028 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49029 AttributeError: 'NoneType' object has no attribute 'size' 
    49030  
    49031 AttributeError: 'NoneType' object has no attribute 'size' 
    49032  
    49033 File
    49034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49035 packages/chimerax/map/volume.py", line 1558, in subregion 
    49036 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49037  
    49038 See log for complete Python traceback. 
    49039  
    49040 Traceback (most recent call last): 
    49041 File
    49042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49043 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49044 drew = self.draw_new_frame() 
    49045 File
    49046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49047 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49048 surface.update_clip_caps(view) 
    49049 File
    49050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49051 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49052 subdivision = settings.clipping_cap_subdivision) 
    49053 File
    49054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49055 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49056 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49057 File
    49058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49059 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49060 cm.set_geometry(varray, narray, tarray) 
    49061 File
    49062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49063 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49064 arv() 
    49065 File
    49066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49067 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49068 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49069 File
    49070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49071 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49072 s.vertex_colors = self.vertex_colors(report_stats) 
    49073 File
    49074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49075 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49076 values, outside = self.volume_values() 
    49077 File
    49078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49079 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49080 return self.offset_values(v, n, tf) 
    49081 File
    49082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49083 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49084 values, outside = self.vertex_values(v, xf) 
    49085 File
    49086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49087 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49088 out_of_bounds_list = True) 
    49089 File
    49090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49091 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49092 subregion, step) 
    49093 File
    49094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49095 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49096 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49097 File
    49098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49099 packages/chimerax/map/volume.py", line 1243, in
    49100 matrix_indices_to_xyz_transform 
    49101 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49102 File
    49103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49104 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49105 r = self.subregion(step, subregion) 
    49106 File
    49107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49108 packages/chimerax/map/volume.py", line 1558, in subregion 
    49109 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49110 AttributeError: 'NoneType' object has no attribute 'size' 
    49111  
    49112 AttributeError: 'NoneType' object has no attribute 'size' 
    49113  
    49114 File
    49115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49116 packages/chimerax/map/volume.py", line 1558, in subregion 
    49117 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49118  
    49119 See log for complete Python traceback. 
    49120  
    49121 Traceback (most recent call last): 
    49122 File
    49123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49124 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49125 drew = self.draw_new_frame() 
    49126 File
    49127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49128 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49129 surface.update_clip_caps(view) 
    49130 File
    49131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49132 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49133 subdivision = settings.clipping_cap_subdivision) 
    49134 File
    49135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49136 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49137 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49138 File
    49139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49140 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49141 cm.set_geometry(varray, narray, tarray) 
    49142 File
    49143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49144 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49145 arv() 
    49146 File
    49147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49148 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49149 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49150 File
    49151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49152 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49153 s.vertex_colors = self.vertex_colors(report_stats) 
    49154 File
    49155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49156 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49157 values, outside = self.volume_values() 
    49158 File
    49159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49160 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49161 return self.offset_values(v, n, tf) 
    49162 File
    49163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49164 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49165 values, outside = self.vertex_values(v, xf) 
    49166 File
    49167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49168 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49169 out_of_bounds_list = True) 
    49170 File
    49171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49172 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49173 subregion, step) 
    49174 File
    49175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49176 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49177 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49178 File
    49179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49180 packages/chimerax/map/volume.py", line 1243, in
    49181 matrix_indices_to_xyz_transform 
    49182 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49183 File
    49184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49185 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49186 r = self.subregion(step, subregion) 
    49187 File
    49188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49189 packages/chimerax/map/volume.py", line 1558, in subregion 
    49190 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49191 AttributeError: 'NoneType' object has no attribute 'size' 
    49192  
    49193 AttributeError: 'NoneType' object has no attribute 'size' 
    49194  
    49195 File
    49196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49197 packages/chimerax/map/volume.py", line 1558, in subregion 
    49198 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49199  
    49200 See log for complete Python traceback. 
    49201  
    49202 Traceback (most recent call last): 
    49203 File
    49204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49205 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49206 drew = self.draw_new_frame() 
    49207 File
    49208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49209 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49210 surface.update_clip_caps(view) 
    49211 File
    49212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49213 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49214 subdivision = settings.clipping_cap_subdivision) 
    49215 File
    49216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49217 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49218 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49219 File
    49220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49221 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49222 cm.set_geometry(varray, narray, tarray) 
    49223 File
    49224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49225 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49226 arv() 
    49227 File
    49228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49229 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49230 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49231 File
    49232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49233 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49234 s.vertex_colors = self.vertex_colors(report_stats) 
    49235 File
    49236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49237 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49238 values, outside = self.volume_values() 
    49239 File
    49240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49241 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49242 return self.offset_values(v, n, tf) 
    49243 File
    49244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49245 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49246 values, outside = self.vertex_values(v, xf) 
    49247 File
    49248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49249 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49250 out_of_bounds_list = True) 
    49251 File
    49252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49253 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49254 subregion, step) 
    49255 File
    49256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49257 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49258 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49259 File
    49260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49261 packages/chimerax/map/volume.py", line 1243, in
    49262 matrix_indices_to_xyz_transform 
    49263 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49264 File
    49265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49266 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49267 r = self.subregion(step, subregion) 
    49268 File
    49269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49270 packages/chimerax/map/volume.py", line 1558, in subregion 
    49271 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49272 AttributeError: 'NoneType' object has no attribute 'size' 
    49273  
    49274 AttributeError: 'NoneType' object has no attribute 'size' 
    49275  
    49276 File
    49277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49278 packages/chimerax/map/volume.py", line 1558, in subregion 
    49279 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49280  
    49281 See log for complete Python traceback. 
    49282  
    49283 Traceback (most recent call last): 
    49284 File
    49285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49286 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49287 drew = self.draw_new_frame() 
    49288 File
    49289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49290 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49291 surface.update_clip_caps(view) 
    49292 File
    49293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49294 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49295 subdivision = settings.clipping_cap_subdivision) 
    49296 File
    49297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49298 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49299 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49300 File
    49301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49302 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49303 cm.set_geometry(varray, narray, tarray) 
    49304 File
    49305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49306 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49307 arv() 
    49308 File
    49309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49310 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49311 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49312 File
    49313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49314 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49315 s.vertex_colors = self.vertex_colors(report_stats) 
    49316 File
    49317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49318 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49319 values, outside = self.volume_values() 
    49320 File
    49321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49322 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49323 return self.offset_values(v, n, tf) 
    49324 File
    49325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49326 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49327 values, outside = self.vertex_values(v, xf) 
    49328 File
    49329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49330 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49331 out_of_bounds_list = True) 
    49332 File
    49333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49334 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49335 subregion, step) 
    49336 File
    49337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49338 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49339 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49340 File
    49341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49342 packages/chimerax/map/volume.py", line 1243, in
    49343 matrix_indices_to_xyz_transform 
    49344 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49345 File
    49346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49347 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49348 r = self.subregion(step, subregion) 
    49349 File
    49350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49351 packages/chimerax/map/volume.py", line 1558, in subregion 
    49352 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49353 AttributeError: 'NoneType' object has no attribute 'size' 
    49354  
    49355 AttributeError: 'NoneType' object has no attribute 'size' 
    49356  
    49357 File
    49358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49359 packages/chimerax/map/volume.py", line 1558, in subregion 
    49360 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49361  
    49362 See log for complete Python traceback. 
    49363  
    49364 Traceback (most recent call last): 
    49365 File
    49366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49367 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49368 drew = self.draw_new_frame() 
    49369 File
    49370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49371 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49372 surface.update_clip_caps(view) 
    49373 File
    49374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49375 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49376 subdivision = settings.clipping_cap_subdivision) 
    49377 File
    49378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49379 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49380 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49381 File
    49382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49383 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49384 cm.set_geometry(varray, narray, tarray) 
    49385 File
    49386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49387 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49388 arv() 
    49389 File
    49390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49391 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49392 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49393 File
    49394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49395 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49396 s.vertex_colors = self.vertex_colors(report_stats) 
    49397 File
    49398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49399 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49400 values, outside = self.volume_values() 
    49401 File
    49402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49403 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49404 return self.offset_values(v, n, tf) 
    49405 File
    49406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49407 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49408 values, outside = self.vertex_values(v, xf) 
    49409 File
    49410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49411 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49412 out_of_bounds_list = True) 
    49413 File
    49414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49415 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49416 subregion, step) 
    49417 File
    49418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49419 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49420 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49421 File
    49422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49423 packages/chimerax/map/volume.py", line 1243, in
    49424 matrix_indices_to_xyz_transform 
    49425 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49426 File
    49427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49428 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49429 r = self.subregion(step, subregion) 
    49430 File
    49431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49432 packages/chimerax/map/volume.py", line 1558, in subregion 
    49433 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49434 AttributeError: 'NoneType' object has no attribute 'size' 
    49435  
    49436 AttributeError: 'NoneType' object has no attribute 'size' 
    49437  
    49438 File
    49439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49440 packages/chimerax/map/volume.py", line 1558, in subregion 
    49441 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49442  
    49443 See log for complete Python traceback. 
    49444  
    49445 Traceback (most recent call last): 
    49446 File
    49447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49448 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49449 drew = self.draw_new_frame() 
    49450 File
    49451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49452 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49453 surface.update_clip_caps(view) 
    49454 File
    49455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49456 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49457 subdivision = settings.clipping_cap_subdivision) 
    49458 File
    49459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49460 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49461 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49462 File
    49463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49464 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49465 cm.set_geometry(varray, narray, tarray) 
    49466 File
    49467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49468 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49469 arv() 
    49470 File
    49471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49472 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49473 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49474 File
    49475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49476 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49477 s.vertex_colors = self.vertex_colors(report_stats) 
    49478 File
    49479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49480 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49481 values, outside = self.volume_values() 
    49482 File
    49483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49484 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49485 return self.offset_values(v, n, tf) 
    49486 File
    49487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49488 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49489 values, outside = self.vertex_values(v, xf) 
    49490 File
    49491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49492 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49493 out_of_bounds_list = True) 
    49494 File
    49495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49496 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49497 subregion, step) 
    49498 File
    49499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49500 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49501 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49502 File
    49503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49504 packages/chimerax/map/volume.py", line 1243, in
    49505 matrix_indices_to_xyz_transform 
    49506 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49507 File
    49508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49509 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49510 r = self.subregion(step, subregion) 
    49511 File
    49512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49513 packages/chimerax/map/volume.py", line 1558, in subregion 
    49514 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49515 AttributeError: 'NoneType' object has no attribute 'size' 
    49516  
    49517 AttributeError: 'NoneType' object has no attribute 'size' 
    49518  
    49519 File
    49520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49521 packages/chimerax/map/volume.py", line 1558, in subregion 
    49522 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49523  
    49524 See log for complete Python traceback. 
    49525  
    49526 Traceback (most recent call last): 
    49527 File
    49528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49529 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49530 drew = self.draw_new_frame() 
    49531 File
    49532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49533 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49534 surface.update_clip_caps(view) 
    49535 File
    49536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49537 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49538 subdivision = settings.clipping_cap_subdivision) 
    49539 File
    49540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49541 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49542 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49543 File
    49544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49545 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49546 cm.set_geometry(varray, narray, tarray) 
    49547 File
    49548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49549 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49550 arv() 
    49551 File
    49552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49553 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49554 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49555 File
    49556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49557 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49558 s.vertex_colors = self.vertex_colors(report_stats) 
    49559 File
    49560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49561 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49562 values, outside = self.volume_values() 
    49563 File
    49564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49565 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49566 return self.offset_values(v, n, tf) 
    49567 File
    49568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49569 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49570 values, outside = self.vertex_values(v, xf) 
    49571 File
    49572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49573 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49574 out_of_bounds_list = True) 
    49575 File
    49576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49577 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49578 subregion, step) 
    49579 File
    49580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49581 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49582 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49583 File
    49584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49585 packages/chimerax/map/volume.py", line 1243, in
    49586 matrix_indices_to_xyz_transform 
    49587 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49588 File
    49589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49590 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49591 r = self.subregion(step, subregion) 
    49592 File
    49593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49594 packages/chimerax/map/volume.py", line 1558, in subregion 
    49595 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49596 AttributeError: 'NoneType' object has no attribute 'size' 
    49597  
    49598 AttributeError: 'NoneType' object has no attribute 'size' 
    49599  
    49600 File
    49601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49602 packages/chimerax/map/volume.py", line 1558, in subregion 
    49603 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49604  
    49605 See log for complete Python traceback. 
    49606  
    49607 Traceback (most recent call last): 
    49608 File
    49609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49610 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49611 drew = self.draw_new_frame() 
    49612 File
    49613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49614 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49615 surface.update_clip_caps(view) 
    49616 File
    49617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49618 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49619 subdivision = settings.clipping_cap_subdivision) 
    49620 File
    49621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49622 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49623 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49624 File
    49625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49626 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49627 cm.set_geometry(varray, narray, tarray) 
    49628 File
    49629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49630 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49631 arv() 
    49632 File
    49633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49634 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49635 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49636 File
    49637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49638 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49639 s.vertex_colors = self.vertex_colors(report_stats) 
    49640 File
    49641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49642 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49643 values, outside = self.volume_values() 
    49644 File
    49645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49646 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49647 return self.offset_values(v, n, tf) 
    49648 File
    49649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49650 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49651 values, outside = self.vertex_values(v, xf) 
    49652 File
    49653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49654 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49655 out_of_bounds_list = True) 
    49656 File
    49657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49658 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49659 subregion, step) 
    49660 File
    49661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49662 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49663 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49664 File
    49665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49666 packages/chimerax/map/volume.py", line 1243, in
    49667 matrix_indices_to_xyz_transform 
    49668 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49669 File
    49670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49671 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49672 r = self.subregion(step, subregion) 
    49673 File
    49674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49675 packages/chimerax/map/volume.py", line 1558, in subregion 
    49676 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49677 AttributeError: 'NoneType' object has no attribute 'size' 
    49678  
    49679 AttributeError: 'NoneType' object has no attribute 'size' 
    49680  
    49681 File
    49682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49683 packages/chimerax/map/volume.py", line 1558, in subregion 
    49684 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49685  
    49686 See log for complete Python traceback. 
    49687  
    49688 Traceback (most recent call last): 
    49689 File
    49690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49691 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49692 drew = self.draw_new_frame() 
    49693 File
    49694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49695 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49696 surface.update_clip_caps(view) 
    49697 File
    49698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49699 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49700 subdivision = settings.clipping_cap_subdivision) 
    49701 File
    49702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49703 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49704 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49705 File
    49706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49707 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49708 cm.set_geometry(varray, narray, tarray) 
    49709 File
    49710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49711 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49712 arv() 
    49713 File
    49714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49715 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49716 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49717 File
    49718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49719 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49720 s.vertex_colors = self.vertex_colors(report_stats) 
    49721 File
    49722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49723 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49724 values, outside = self.volume_values() 
    49725 File
    49726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49727 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49728 return self.offset_values(v, n, tf) 
    49729 File
    49730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49731 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49732 values, outside = self.vertex_values(v, xf) 
    49733 File
    49734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49735 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49736 out_of_bounds_list = True) 
    49737 File
    49738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49739 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49740 subregion, step) 
    49741 File
    49742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49743 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49744 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49745 File
    49746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49747 packages/chimerax/map/volume.py", line 1243, in
    49748 matrix_indices_to_xyz_transform 
    49749 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49750 File
    49751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49752 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49753 r = self.subregion(step, subregion) 
    49754 File
    49755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49756 packages/chimerax/map/volume.py", line 1558, in subregion 
    49757 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49758 AttributeError: 'NoneType' object has no attribute 'size' 
    49759  
    49760 AttributeError: 'NoneType' object has no attribute 'size' 
    49761  
    49762 File
    49763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49764 packages/chimerax/map/volume.py", line 1558, in subregion 
    49765 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49766  
    49767 See log for complete Python traceback. 
    49768  
    49769 Traceback (most recent call last): 
    49770 File
    49771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49772 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49773 drew = self.draw_new_frame() 
    49774 File
    49775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49776 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49777 surface.update_clip_caps(view) 
    49778 File
    49779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49780 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49781 subdivision = settings.clipping_cap_subdivision) 
    49782 File
    49783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49784 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49785 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49786 File
    49787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49788 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49789 cm.set_geometry(varray, narray, tarray) 
    49790 File
    49791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49792 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49793 arv() 
    49794 File
    49795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49796 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49797 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49798 File
    49799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49800 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49801 s.vertex_colors = self.vertex_colors(report_stats) 
    49802 File
    49803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49804 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49805 values, outside = self.volume_values() 
    49806 File
    49807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49808 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49809 return self.offset_values(v, n, tf) 
    49810 File
    49811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49812 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49813 values, outside = self.vertex_values(v, xf) 
    49814 File
    49815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49816 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49817 out_of_bounds_list = True) 
    49818 File
    49819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49820 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49821 subregion, step) 
    49822 File
    49823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49824 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49825 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49826 File
    49827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49828 packages/chimerax/map/volume.py", line 1243, in
    49829 matrix_indices_to_xyz_transform 
    49830 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49831 File
    49832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49833 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49834 r = self.subregion(step, subregion) 
    49835 File
    49836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49837 packages/chimerax/map/volume.py", line 1558, in subregion 
    49838 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49839 AttributeError: 'NoneType' object has no attribute 'size' 
    49840  
    49841 AttributeError: 'NoneType' object has no attribute 'size' 
    49842  
    49843 File
    49844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49845 packages/chimerax/map/volume.py", line 1558, in subregion 
    49846 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49847  
    49848 See log for complete Python traceback. 
    49849  
    49850 Traceback (most recent call last): 
    49851 File
    49852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49853 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49854 drew = self.draw_new_frame() 
    49855 File
    49856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49857 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49858 surface.update_clip_caps(view) 
    49859 File
    49860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49861 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49862 subdivision = settings.clipping_cap_subdivision) 
    49863 File
    49864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49865 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49866 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49867 File
    49868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49869 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49870 cm.set_geometry(varray, narray, tarray) 
    49871 File
    49872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49873 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49874 arv() 
    49875 File
    49876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49877 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49878 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49879 File
    49880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49881 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49882 s.vertex_colors = self.vertex_colors(report_stats) 
    49883 File
    49884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49885 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49886 values, outside = self.volume_values() 
    49887 File
    49888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49889 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49890 return self.offset_values(v, n, tf) 
    49891 File
    49892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49893 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49894 values, outside = self.vertex_values(v, xf) 
    49895 File
    49896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49897 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49898 out_of_bounds_list = True) 
    49899 File
    49900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49901 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49902 subregion, step) 
    49903 File
    49904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49905 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49906 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49907 File
    49908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49909 packages/chimerax/map/volume.py", line 1243, in
    49910 matrix_indices_to_xyz_transform 
    49911 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49912 File
    49913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49914 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49915 r = self.subregion(step, subregion) 
    49916 File
    49917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49918 packages/chimerax/map/volume.py", line 1558, in subregion 
    49919 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49920 AttributeError: 'NoneType' object has no attribute 'size' 
    49921  
    49922 AttributeError: 'NoneType' object has no attribute 'size' 
    49923  
    49924 File
    49925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49926 packages/chimerax/map/volume.py", line 1558, in subregion 
    49927 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    49928  
    49929 See log for complete Python traceback. 
    49930  
    49931 Traceback (most recent call last): 
    49932 File
    49933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49934 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    49935 drew = self.draw_new_frame() 
    49936 File
    49937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49938 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    49939 surface.update_clip_caps(view) 
    49940 File
    49941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49942 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    49943 subdivision = settings.clipping_cap_subdivision) 
    49944 File
    49945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49946 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    49947 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    49948 File
    49949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49950 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    49951 cm.set_geometry(varray, narray, tarray) 
    49952 File
    49953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49954 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    49955 arv() 
    49956 File
    49957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49958 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    49959 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    49960 File
    49961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49962 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    49963 s.vertex_colors = self.vertex_colors(report_stats) 
    49964 File
    49965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49966 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    49967 values, outside = self.volume_values() 
    49968 File
    49969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49970 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    49971 return self.offset_values(v, n, tf) 
    49972 File
    49973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49974 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    49975 values, outside = self.vertex_values(v, xf) 
    49976 File
    49977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49978 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    49979 out_of_bounds_list = True) 
    49980 File
    49981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49982 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    49983 subregion, step) 
    49984 File
    49985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49986 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    49987 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    49988 File
    49989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49990 packages/chimerax/map/volume.py", line 1243, in
    49991 matrix_indices_to_xyz_transform 
    49992 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    49993 File
    49994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49995 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    49996 r = self.subregion(step, subregion) 
    49997 File
    49998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    49999 packages/chimerax/map/volume.py", line 1558, in subregion 
    50000 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50001 AttributeError: 'NoneType' object has no attribute 'size' 
    50002  
    50003 AttributeError: 'NoneType' object has no attribute 'size' 
    50004  
    50005 File
    50006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50007 packages/chimerax/map/volume.py", line 1558, in subregion 
    50008 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50009  
    50010 See log for complete Python traceback. 
    50011  
    50012 Traceback (most recent call last): 
    50013 File
    50014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50015 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50016 drew = self.draw_new_frame() 
    50017 File
    50018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50019 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50020 surface.update_clip_caps(view) 
    50021 File
    50022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50023 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50024 subdivision = settings.clipping_cap_subdivision) 
    50025 File
    50026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50027 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50028 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50029 File
    50030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50031 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50032 cm.set_geometry(varray, narray, tarray) 
    50033 File
    50034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50035 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50036 arv() 
    50037 File
    50038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50039 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50040 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50041 File
    50042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50043 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50044 s.vertex_colors = self.vertex_colors(report_stats) 
    50045 File
    50046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50047 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50048 values, outside = self.volume_values() 
    50049 File
    50050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50051 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50052 return self.offset_values(v, n, tf) 
    50053 File
    50054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50055 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50056 values, outside = self.vertex_values(v, xf) 
    50057 File
    50058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50059 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50060 out_of_bounds_list = True) 
    50061 File
    50062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50063 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50064 subregion, step) 
    50065 File
    50066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50067 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50068 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50069 File
    50070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50071 packages/chimerax/map/volume.py", line 1243, in
    50072 matrix_indices_to_xyz_transform 
    50073 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50074 File
    50075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50076 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50077 r = self.subregion(step, subregion) 
    50078 File
    50079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50080 packages/chimerax/map/volume.py", line 1558, in subregion 
    50081 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50082 AttributeError: 'NoneType' object has no attribute 'size' 
    50083  
    50084 AttributeError: 'NoneType' object has no attribute 'size' 
    50085  
    50086 File
    50087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50088 packages/chimerax/map/volume.py", line 1558, in subregion 
    50089 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50090  
    50091 See log for complete Python traceback. 
    50092  
    50093 Traceback (most recent call last): 
    50094 File
    50095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50096 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50097 drew = self.draw_new_frame() 
    50098 File
    50099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50100 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50101 surface.update_clip_caps(view) 
    50102 File
    50103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50104 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50105 subdivision = settings.clipping_cap_subdivision) 
    50106 File
    50107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50108 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50109 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50110 File
    50111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50112 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50113 cm.set_geometry(varray, narray, tarray) 
    50114 File
    50115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50116 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50117 arv() 
    50118 File
    50119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50120 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50121 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50122 File
    50123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50124 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50125 s.vertex_colors = self.vertex_colors(report_stats) 
    50126 File
    50127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50128 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50129 values, outside = self.volume_values() 
    50130 File
    50131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50132 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50133 return self.offset_values(v, n, tf) 
    50134 File
    50135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50136 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50137 values, outside = self.vertex_values(v, xf) 
    50138 File
    50139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50140 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50141 out_of_bounds_list = True) 
    50142 File
    50143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50144 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50145 subregion, step) 
    50146 File
    50147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50148 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50149 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50150 File
    50151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50152 packages/chimerax/map/volume.py", line 1243, in
    50153 matrix_indices_to_xyz_transform 
    50154 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50155 File
    50156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50157 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50158 r = self.subregion(step, subregion) 
    50159 File
    50160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50161 packages/chimerax/map/volume.py", line 1558, in subregion 
    50162 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50163 AttributeError: 'NoneType' object has no attribute 'size' 
    50164  
    50165 AttributeError: 'NoneType' object has no attribute 'size' 
    50166  
    50167 File
    50168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50169 packages/chimerax/map/volume.py", line 1558, in subregion 
    50170 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50171  
    50172 See log for complete Python traceback. 
    50173  
    50174 Traceback (most recent call last): 
    50175 File
    50176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50177 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50178 drew = self.draw_new_frame() 
    50179 File
    50180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50181 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50182 surface.update_clip_caps(view) 
    50183 File
    50184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50185 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50186 subdivision = settings.clipping_cap_subdivision) 
    50187 File
    50188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50189 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50190 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50191 File
    50192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50193 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50194 cm.set_geometry(varray, narray, tarray) 
    50195 File
    50196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50197 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50198 arv() 
    50199 File
    50200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50201 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50202 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50203 File
    50204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50205 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50206 s.vertex_colors = self.vertex_colors(report_stats) 
    50207 File
    50208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50209 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50210 values, outside = self.volume_values() 
    50211 File
    50212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50213 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50214 return self.offset_values(v, n, tf) 
    50215 File
    50216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50217 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50218 values, outside = self.vertex_values(v, xf) 
    50219 File
    50220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50221 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50222 out_of_bounds_list = True) 
    50223 File
    50224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50225 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50226 subregion, step) 
    50227 File
    50228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50229 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50230 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50231 File
    50232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50233 packages/chimerax/map/volume.py", line 1243, in
    50234 matrix_indices_to_xyz_transform 
    50235 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50236 File
    50237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50238 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50239 r = self.subregion(step, subregion) 
    50240 File
    50241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50242 packages/chimerax/map/volume.py", line 1558, in subregion 
    50243 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50244 AttributeError: 'NoneType' object has no attribute 'size' 
    50245  
    50246 AttributeError: 'NoneType' object has no attribute 'size' 
    50247  
    50248 File
    50249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50250 packages/chimerax/map/volume.py", line 1558, in subregion 
    50251 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50252  
    50253 See log for complete Python traceback. 
    50254  
    50255 Traceback (most recent call last): 
    50256 File
    50257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50258 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50259 drew = self.draw_new_frame() 
    50260 File
    50261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50262 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50263 surface.update_clip_caps(view) 
    50264 File
    50265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50266 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50267 subdivision = settings.clipping_cap_subdivision) 
    50268 File
    50269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50270 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50271 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50272 File
    50273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50274 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50275 cm.set_geometry(varray, narray, tarray) 
    50276 File
    50277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50278 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50279 arv() 
    50280 File
    50281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50282 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50283 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50284 File
    50285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50286 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50287 s.vertex_colors = self.vertex_colors(report_stats) 
    50288 File
    50289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50290 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50291 values, outside = self.volume_values() 
    50292 File
    50293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50294 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50295 return self.offset_values(v, n, tf) 
    50296 File
    50297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50298 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50299 values, outside = self.vertex_values(v, xf) 
    50300 File
    50301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50302 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50303 out_of_bounds_list = True) 
    50304 File
    50305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50306 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50307 subregion, step) 
    50308 File
    50309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50310 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50311 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50312 File
    50313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50314 packages/chimerax/map/volume.py", line 1243, in
    50315 matrix_indices_to_xyz_transform 
    50316 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50317 File
    50318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50319 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50320 r = self.subregion(step, subregion) 
    50321 File
    50322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50323 packages/chimerax/map/volume.py", line 1558, in subregion 
    50324 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50325 AttributeError: 'NoneType' object has no attribute 'size' 
    50326  
    50327 AttributeError: 'NoneType' object has no attribute 'size' 
    50328  
    50329 File
    50330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50331 packages/chimerax/map/volume.py", line 1558, in subregion 
    50332 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50333  
    50334 See log for complete Python traceback. 
    50335  
    50336 Traceback (most recent call last): 
    50337 File
    50338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50339 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50340 drew = self.draw_new_frame() 
    50341 File
    50342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50343 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50344 surface.update_clip_caps(view) 
    50345 File
    50346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50347 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50348 subdivision = settings.clipping_cap_subdivision) 
    50349 File
    50350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50351 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50352 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50353 File
    50354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50355 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50356 cm.set_geometry(varray, narray, tarray) 
    50357 File
    50358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50359 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50360 arv() 
    50361 File
    50362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50363 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50364 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50365 File
    50366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50367 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50368 s.vertex_colors = self.vertex_colors(report_stats) 
    50369 File
    50370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50371 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50372 values, outside = self.volume_values() 
    50373 File
    50374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50375 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50376 return self.offset_values(v, n, tf) 
    50377 File
    50378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50379 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50380 values, outside = self.vertex_values(v, xf) 
    50381 File
    50382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50383 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50384 out_of_bounds_list = True) 
    50385 File
    50386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50387 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50388 subregion, step) 
    50389 File
    50390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50391 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50392 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50393 File
    50394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50395 packages/chimerax/map/volume.py", line 1243, in
    50396 matrix_indices_to_xyz_transform 
    50397 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50398 File
    50399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50400 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50401 r = self.subregion(step, subregion) 
    50402 File
    50403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50404 packages/chimerax/map/volume.py", line 1558, in subregion 
    50405 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50406 AttributeError: 'NoneType' object has no attribute 'size' 
    50407  
    50408 AttributeError: 'NoneType' object has no attribute 'size' 
    50409  
    50410 File
    50411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50412 packages/chimerax/map/volume.py", line 1558, in subregion 
    50413 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50414  
    50415 See log for complete Python traceback. 
    50416  
    50417 Traceback (most recent call last): 
    50418 File
    50419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50420 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50421 drew = self.draw_new_frame() 
    50422 File
    50423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50424 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50425 surface.update_clip_caps(view) 
    50426 File
    50427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50428 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50429 subdivision = settings.clipping_cap_subdivision) 
    50430 File
    50431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50432 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50433 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50434 File
    50435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50436 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50437 cm.set_geometry(varray, narray, tarray) 
    50438 File
    50439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50440 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50441 arv() 
    50442 File
    50443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50444 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50445 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50446 File
    50447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50448 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50449 s.vertex_colors = self.vertex_colors(report_stats) 
    50450 File
    50451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50452 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50453 values, outside = self.volume_values() 
    50454 File
    50455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50456 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50457 return self.offset_values(v, n, tf) 
    50458 File
    50459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50460 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50461 values, outside = self.vertex_values(v, xf) 
    50462 File
    50463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50464 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50465 out_of_bounds_list = True) 
    50466 File
    50467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50468 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50469 subregion, step) 
    50470 File
    50471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50472 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50473 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50474 File
    50475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50476 packages/chimerax/map/volume.py", line 1243, in
    50477 matrix_indices_to_xyz_transform 
    50478 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50479 File
    50480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50481 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50482 r = self.subregion(step, subregion) 
    50483 File
    50484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50485 packages/chimerax/map/volume.py", line 1558, in subregion 
    50486 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50487 AttributeError: 'NoneType' object has no attribute 'size' 
    50488  
    50489 AttributeError: 'NoneType' object has no attribute 'size' 
    50490  
    50491 File
    50492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50493 packages/chimerax/map/volume.py", line 1558, in subregion 
    50494 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50495  
    50496 See log for complete Python traceback. 
    50497  
    50498 Traceback (most recent call last): 
    50499 File
    50500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50501 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50502 drew = self.draw_new_frame() 
    50503 File
    50504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50505 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50506 surface.update_clip_caps(view) 
    50507 File
    50508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50509 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50510 subdivision = settings.clipping_cap_subdivision) 
    50511 File
    50512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50513 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50514 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50515 File
    50516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50517 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50518 cm.set_geometry(varray, narray, tarray) 
    50519 File
    50520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50521 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50522 arv() 
    50523 File
    50524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50525 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50526 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50527 File
    50528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50529 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50530 s.vertex_colors = self.vertex_colors(report_stats) 
    50531 File
    50532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50533 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50534 values, outside = self.volume_values() 
    50535 File
    50536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50537 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50538 return self.offset_values(v, n, tf) 
    50539 File
    50540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50541 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50542 values, outside = self.vertex_values(v, xf) 
    50543 File
    50544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50545 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50546 out_of_bounds_list = True) 
    50547 File
    50548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50549 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50550 subregion, step) 
    50551 File
    50552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50553 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50554 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50555 File
    50556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50557 packages/chimerax/map/volume.py", line 1243, in
    50558 matrix_indices_to_xyz_transform 
    50559 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50560 File
    50561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50562 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50563 r = self.subregion(step, subregion) 
    50564 File
    50565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50566 packages/chimerax/map/volume.py", line 1558, in subregion 
    50567 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50568 AttributeError: 'NoneType' object has no attribute 'size' 
    50569  
    50570 AttributeError: 'NoneType' object has no attribute 'size' 
    50571  
    50572 File
    50573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50574 packages/chimerax/map/volume.py", line 1558, in subregion 
    50575 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50576  
    50577 See log for complete Python traceback. 
    50578  
    50579 Traceback (most recent call last): 
    50580 File
    50581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50582 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50583 drew = self.draw_new_frame() 
    50584 File
    50585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50586 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50587 surface.update_clip_caps(view) 
    50588 File
    50589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50590 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50591 subdivision = settings.clipping_cap_subdivision) 
    50592 File
    50593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50594 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50595 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50596 File
    50597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50598 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50599 cm.set_geometry(varray, narray, tarray) 
    50600 File
    50601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50602 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50603 arv() 
    50604 File
    50605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50606 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50607 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50608 File
    50609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50610 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50611 s.vertex_colors = self.vertex_colors(report_stats) 
    50612 File
    50613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50614 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50615 values, outside = self.volume_values() 
    50616 File
    50617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50618 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50619 return self.offset_values(v, n, tf) 
    50620 File
    50621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50622 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50623 values, outside = self.vertex_values(v, xf) 
    50624 File
    50625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50626 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50627 out_of_bounds_list = True) 
    50628 File
    50629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50630 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50631 subregion, step) 
    50632 File
    50633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50634 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50635 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50636 File
    50637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50638 packages/chimerax/map/volume.py", line 1243, in
    50639 matrix_indices_to_xyz_transform 
    50640 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50641 File
    50642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50643 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50644 r = self.subregion(step, subregion) 
    50645 File
    50646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50647 packages/chimerax/map/volume.py", line 1558, in subregion 
    50648 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50649 AttributeError: 'NoneType' object has no attribute 'size' 
    50650  
    50651 AttributeError: 'NoneType' object has no attribute 'size' 
    50652  
    50653 File
    50654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50655 packages/chimerax/map/volume.py", line 1558, in subregion 
    50656 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50657  
    50658 See log for complete Python traceback. 
    50659  
    50660 Traceback (most recent call last): 
    50661 File
    50662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50663 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50664 drew = self.draw_new_frame() 
    50665 File
    50666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50667 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50668 surface.update_clip_caps(view) 
    50669 File
    50670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50671 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50672 subdivision = settings.clipping_cap_subdivision) 
    50673 File
    50674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50675 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50676 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50677 File
    50678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50679 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50680 cm.set_geometry(varray, narray, tarray) 
    50681 File
    50682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50683 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50684 arv() 
    50685 File
    50686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50687 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50688 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50689 File
    50690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50691 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50692 s.vertex_colors = self.vertex_colors(report_stats) 
    50693 File
    50694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50695 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50696 values, outside = self.volume_values() 
    50697 File
    50698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50699 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50700 return self.offset_values(v, n, tf) 
    50701 File
    50702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50703 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50704 values, outside = self.vertex_values(v, xf) 
    50705 File
    50706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50707 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50708 out_of_bounds_list = True) 
    50709 File
    50710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50711 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50712 subregion, step) 
    50713 File
    50714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50715 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50716 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50717 File
    50718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50719 packages/chimerax/map/volume.py", line 1243, in
    50720 matrix_indices_to_xyz_transform 
    50721 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50722 File
    50723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50724 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50725 r = self.subregion(step, subregion) 
    50726 File
    50727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50728 packages/chimerax/map/volume.py", line 1558, in subregion 
    50729 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50730 AttributeError: 'NoneType' object has no attribute 'size' 
    50731  
    50732 AttributeError: 'NoneType' object has no attribute 'size' 
    50733  
    50734 File
    50735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50736 packages/chimerax/map/volume.py", line 1558, in subregion 
    50737 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50738  
    50739 See log for complete Python traceback. 
    50740  
    50741 Traceback (most recent call last): 
    50742 File
    50743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50744 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50745 drew = self.draw_new_frame() 
    50746 File
    50747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50748 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50749 surface.update_clip_caps(view) 
    50750 File
    50751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50752 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50753 subdivision = settings.clipping_cap_subdivision) 
    50754 File
    50755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50756 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50757 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50758 File
    50759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50760 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50761 cm.set_geometry(varray, narray, tarray) 
    50762 File
    50763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50764 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50765 arv() 
    50766 File
    50767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50768 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50769 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50770 File
    50771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50772 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50773 s.vertex_colors = self.vertex_colors(report_stats) 
    50774 File
    50775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50776 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50777 values, outside = self.volume_values() 
    50778 File
    50779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50780 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50781 return self.offset_values(v, n, tf) 
    50782 File
    50783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50784 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50785 values, outside = self.vertex_values(v, xf) 
    50786 File
    50787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50788 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50789 out_of_bounds_list = True) 
    50790 File
    50791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50792 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50793 subregion, step) 
    50794 File
    50795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50796 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50797 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50798 File
    50799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50800 packages/chimerax/map/volume.py", line 1243, in
    50801 matrix_indices_to_xyz_transform 
    50802 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50803 File
    50804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50805 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50806 r = self.subregion(step, subregion) 
    50807 File
    50808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50809 packages/chimerax/map/volume.py", line 1558, in subregion 
    50810 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50811 AttributeError: 'NoneType' object has no attribute 'size' 
    50812  
    50813 AttributeError: 'NoneType' object has no attribute 'size' 
    50814  
    50815 File
    50816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50817 packages/chimerax/map/volume.py", line 1558, in subregion 
    50818 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50819  
    50820 See log for complete Python traceback. 
    50821  
    50822 Traceback (most recent call last): 
    50823 File
    50824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50825 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50826 drew = self.draw_new_frame() 
    50827 File
    50828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50829 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50830 surface.update_clip_caps(view) 
    50831 File
    50832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50833 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50834 subdivision = settings.clipping_cap_subdivision) 
    50835 File
    50836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50837 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50838 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50839 File
    50840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50841 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50842 cm.set_geometry(varray, narray, tarray) 
    50843 File
    50844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50845 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50846 arv() 
    50847 File
    50848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50849 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50850 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50851 File
    50852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50853 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50854 s.vertex_colors = self.vertex_colors(report_stats) 
    50855 File
    50856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50857 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50858 values, outside = self.volume_values() 
    50859 File
    50860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50861 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50862 return self.offset_values(v, n, tf) 
    50863 File
    50864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50865 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50866 values, outside = self.vertex_values(v, xf) 
    50867 File
    50868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50869 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50870 out_of_bounds_list = True) 
    50871 File
    50872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50873 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50874 subregion, step) 
    50875 File
    50876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50877 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50878 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50879 File
    50880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50881 packages/chimerax/map/volume.py", line 1243, in
    50882 matrix_indices_to_xyz_transform 
    50883 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50884 File
    50885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50886 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50887 r = self.subregion(step, subregion) 
    50888 File
    50889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50890 packages/chimerax/map/volume.py", line 1558, in subregion 
    50891 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50892 AttributeError: 'NoneType' object has no attribute 'size' 
    50893  
    50894 AttributeError: 'NoneType' object has no attribute 'size' 
    50895  
    50896 File
    50897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50898 packages/chimerax/map/volume.py", line 1558, in subregion 
    50899 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50900  
    50901 See log for complete Python traceback. 
    50902  
    50903 Traceback (most recent call last): 
    50904 File
    50905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50906 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50907 drew = self.draw_new_frame() 
    50908 File
    50909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50910 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50911 surface.update_clip_caps(view) 
    50912 File
    50913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50914 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50915 subdivision = settings.clipping_cap_subdivision) 
    50916 File
    50917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50918 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    50919 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    50920 File
    50921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50922 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    50923 cm.set_geometry(varray, narray, tarray) 
    50924 File
    50925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50926 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    50927 arv() 
    50928 File
    50929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50930 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    50931 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    50932 File
    50933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50934 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    50935 s.vertex_colors = self.vertex_colors(report_stats) 
    50936 File
    50937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50938 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    50939 values, outside = self.volume_values() 
    50940 File
    50941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50942 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    50943 return self.offset_values(v, n, tf) 
    50944 File
    50945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50946 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    50947 values, outside = self.vertex_values(v, xf) 
    50948 File
    50949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50950 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    50951 out_of_bounds_list = True) 
    50952 File
    50953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50954 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    50955 subregion, step) 
    50956 File
    50957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50958 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    50959 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    50960 File
    50961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50962 packages/chimerax/map/volume.py", line 1243, in
    50963 matrix_indices_to_xyz_transform 
    50964 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    50965 File
    50966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50967 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    50968 r = self.subregion(step, subregion) 
    50969 File
    50970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50971 packages/chimerax/map/volume.py", line 1558, in subregion 
    50972 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50973 AttributeError: 'NoneType' object has no attribute 'size' 
    50974  
    50975 AttributeError: 'NoneType' object has no attribute 'size' 
    50976  
    50977 File
    50978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50979 packages/chimerax/map/volume.py", line 1558, in subregion 
    50980 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    50981  
    50982 See log for complete Python traceback. 
    50983  
    50984 Traceback (most recent call last): 
    50985 File
    50986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50987 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    50988 drew = self.draw_new_frame() 
    50989 File
    50990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50991 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    50992 surface.update_clip_caps(view) 
    50993 File
    50994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50995 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    50996 subdivision = settings.clipping_cap_subdivision) 
    50997 File
    50998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    50999 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51000 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51001 File
    51002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51003 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51004 cm.set_geometry(varray, narray, tarray) 
    51005 File
    51006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51007 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51008 arv() 
    51009 File
    51010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51011 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51012 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51013 File
    51014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51015 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51016 s.vertex_colors = self.vertex_colors(report_stats) 
    51017 File
    51018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51019 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51020 values, outside = self.volume_values() 
    51021 File
    51022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51023 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51024 return self.offset_values(v, n, tf) 
    51025 File
    51026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51027 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51028 values, outside = self.vertex_values(v, xf) 
    51029 File
    51030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51031 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51032 out_of_bounds_list = True) 
    51033 File
    51034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51035 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51036 subregion, step) 
    51037 File
    51038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51039 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51040 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51041 File
    51042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51043 packages/chimerax/map/volume.py", line 1243, in
    51044 matrix_indices_to_xyz_transform 
    51045 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51046 File
    51047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51048 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51049 r = self.subregion(step, subregion) 
    51050 File
    51051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51052 packages/chimerax/map/volume.py", line 1558, in subregion 
    51053 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51054 AttributeError: 'NoneType' object has no attribute 'size' 
    51055  
    51056 AttributeError: 'NoneType' object has no attribute 'size' 
    51057  
    51058 File
    51059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51060 packages/chimerax/map/volume.py", line 1558, in subregion 
    51061 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51062  
    51063 See log for complete Python traceback. 
    51064  
    51065 Traceback (most recent call last): 
    51066 File
    51067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51068 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51069 drew = self.draw_new_frame() 
    51070 File
    51071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51072 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51073 surface.update_clip_caps(view) 
    51074 File
    51075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51076 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51077 subdivision = settings.clipping_cap_subdivision) 
    51078 File
    51079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51080 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51081 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51082 File
    51083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51084 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51085 cm.set_geometry(varray, narray, tarray) 
    51086 File
    51087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51088 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51089 arv() 
    51090 File
    51091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51092 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51093 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51094 File
    51095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51096 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51097 s.vertex_colors = self.vertex_colors(report_stats) 
    51098 File
    51099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51100 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51101 values, outside = self.volume_values() 
    51102 File
    51103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51104 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51105 return self.offset_values(v, n, tf) 
    51106 File
    51107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51108 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51109 values, outside = self.vertex_values(v, xf) 
    51110 File
    51111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51112 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51113 out_of_bounds_list = True) 
    51114 File
    51115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51116 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51117 subregion, step) 
    51118 File
    51119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51120 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51121 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51122 File
    51123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51124 packages/chimerax/map/volume.py", line 1243, in
    51125 matrix_indices_to_xyz_transform 
    51126 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51127 File
    51128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51129 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51130 r = self.subregion(step, subregion) 
    51131 File
    51132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51133 packages/chimerax/map/volume.py", line 1558, in subregion 
    51134 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51135 AttributeError: 'NoneType' object has no attribute 'size' 
    51136  
    51137 AttributeError: 'NoneType' object has no attribute 'size' 
    51138  
    51139 File
    51140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51141 packages/chimerax/map/volume.py", line 1558, in subregion 
    51142 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51143  
    51144 See log for complete Python traceback. 
    51145  
    51146 Traceback (most recent call last): 
    51147 File
    51148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51149 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51150 drew = self.draw_new_frame() 
    51151 File
    51152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51153 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51154 surface.update_clip_caps(view) 
    51155 File
    51156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51157 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51158 subdivision = settings.clipping_cap_subdivision) 
    51159 File
    51160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51161 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51162 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51163 File
    51164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51165 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51166 cm.set_geometry(varray, narray, tarray) 
    51167 File
    51168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51169 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51170 arv() 
    51171 File
    51172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51173 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51174 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51175 File
    51176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51177 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51178 s.vertex_colors = self.vertex_colors(report_stats) 
    51179 File
    51180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51181 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51182 values, outside = self.volume_values() 
    51183 File
    51184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51185 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51186 return self.offset_values(v, n, tf) 
    51187 File
    51188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51189 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51190 values, outside = self.vertex_values(v, xf) 
    51191 File
    51192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51193 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51194 out_of_bounds_list = True) 
    51195 File
    51196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51197 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51198 subregion, step) 
    51199 File
    51200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51201 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51202 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51203 File
    51204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51205 packages/chimerax/map/volume.py", line 1243, in
    51206 matrix_indices_to_xyz_transform 
    51207 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51208 File
    51209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51210 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51211 r = self.subregion(step, subregion) 
    51212 File
    51213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51214 packages/chimerax/map/volume.py", line 1558, in subregion 
    51215 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51216 AttributeError: 'NoneType' object has no attribute 'size' 
    51217  
    51218 AttributeError: 'NoneType' object has no attribute 'size' 
    51219  
    51220 File
    51221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51222 packages/chimerax/map/volume.py", line 1558, in subregion 
    51223 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51224  
    51225 See log for complete Python traceback. 
    51226  
    51227 Traceback (most recent call last): 
    51228 File
    51229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51230 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51231 drew = self.draw_new_frame() 
    51232 File
    51233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51234 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51235 surface.update_clip_caps(view) 
    51236 File
    51237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51238 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51239 subdivision = settings.clipping_cap_subdivision) 
    51240 File
    51241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51242 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51243 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51244 File
    51245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51246 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51247 cm.set_geometry(varray, narray, tarray) 
    51248 File
    51249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51250 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51251 arv() 
    51252 File
    51253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51254 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51255 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51256 File
    51257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51258 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51259 s.vertex_colors = self.vertex_colors(report_stats) 
    51260 File
    51261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51262 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51263 values, outside = self.volume_values() 
    51264 File
    51265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51266 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51267 return self.offset_values(v, n, tf) 
    51268 File
    51269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51270 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51271 values, outside = self.vertex_values(v, xf) 
    51272 File
    51273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51274 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51275 out_of_bounds_list = True) 
    51276 File
    51277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51278 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51279 subregion, step) 
    51280 File
    51281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51282 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51283 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51284 File
    51285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51286 packages/chimerax/map/volume.py", line 1243, in
    51287 matrix_indices_to_xyz_transform 
    51288 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51289 File
    51290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51291 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51292 r = self.subregion(step, subregion) 
    51293 File
    51294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51295 packages/chimerax/map/volume.py", line 1558, in subregion 
    51296 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51297 AttributeError: 'NoneType' object has no attribute 'size' 
    51298  
    51299 AttributeError: 'NoneType' object has no attribute 'size' 
    51300  
    51301 File
    51302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51303 packages/chimerax/map/volume.py", line 1558, in subregion 
    51304 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51305  
    51306 See log for complete Python traceback. 
    51307  
    51308 Traceback (most recent call last): 
    51309 File
    51310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51311 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51312 drew = self.draw_new_frame() 
    51313 File
    51314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51315 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51316 surface.update_clip_caps(view) 
    51317 File
    51318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51319 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51320 subdivision = settings.clipping_cap_subdivision) 
    51321 File
    51322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51323 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51324 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51325 File
    51326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51327 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51328 cm.set_geometry(varray, narray, tarray) 
    51329 File
    51330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51331 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51332 arv() 
    51333 File
    51334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51335 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51336 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51337 File
    51338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51339 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51340 s.vertex_colors = self.vertex_colors(report_stats) 
    51341 File
    51342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51343 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51344 values, outside = self.volume_values() 
    51345 File
    51346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51347 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51348 return self.offset_values(v, n, tf) 
    51349 File
    51350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51351 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51352 values, outside = self.vertex_values(v, xf) 
    51353 File
    51354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51355 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51356 out_of_bounds_list = True) 
    51357 File
    51358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51359 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51360 subregion, step) 
    51361 File
    51362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51363 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51364 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51365 File
    51366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51367 packages/chimerax/map/volume.py", line 1243, in
    51368 matrix_indices_to_xyz_transform 
    51369 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51370 File
    51371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51372 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51373 r = self.subregion(step, subregion) 
    51374 File
    51375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51376 packages/chimerax/map/volume.py", line 1558, in subregion 
    51377 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51378 AttributeError: 'NoneType' object has no attribute 'size' 
    51379  
    51380 AttributeError: 'NoneType' object has no attribute 'size' 
    51381  
    51382 File
    51383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51384 packages/chimerax/map/volume.py", line 1558, in subregion 
    51385 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51386  
    51387 See log for complete Python traceback. 
    51388  
    51389 Traceback (most recent call last): 
    51390 File
    51391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51392 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51393 drew = self.draw_new_frame() 
    51394 File
    51395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51396 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51397 surface.update_clip_caps(view) 
    51398 File
    51399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51400 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51401 subdivision = settings.clipping_cap_subdivision) 
    51402 File
    51403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51404 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51405 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51406 File
    51407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51408 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51409 cm.set_geometry(varray, narray, tarray) 
    51410 File
    51411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51412 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51413 arv() 
    51414 File
    51415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51416 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51417 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51418 File
    51419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51420 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51421 s.vertex_colors = self.vertex_colors(report_stats) 
    51422 File
    51423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51424 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51425 values, outside = self.volume_values() 
    51426 File
    51427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51428 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51429 return self.offset_values(v, n, tf) 
    51430 File
    51431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51432 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51433 values, outside = self.vertex_values(v, xf) 
    51434 File
    51435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51436 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51437 out_of_bounds_list = True) 
    51438 File
    51439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51440 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51441 subregion, step) 
    51442 File
    51443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51444 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51445 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51446 File
    51447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51448 packages/chimerax/map/volume.py", line 1243, in
    51449 matrix_indices_to_xyz_transform 
    51450 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51451 File
    51452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51453 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51454 r = self.subregion(step, subregion) 
    51455 File
    51456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51457 packages/chimerax/map/volume.py", line 1558, in subregion 
    51458 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51459 AttributeError: 'NoneType' object has no attribute 'size' 
    51460  
    51461 AttributeError: 'NoneType' object has no attribute 'size' 
    51462  
    51463 File
    51464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51465 packages/chimerax/map/volume.py", line 1558, in subregion 
    51466 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51467  
    51468 See log for complete Python traceback. 
    51469  
    51470 Traceback (most recent call last): 
    51471 File
    51472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51473 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51474 drew = self.draw_new_frame() 
    51475 File
    51476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51477 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51478 surface.update_clip_caps(view) 
    51479 File
    51480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51481 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51482 subdivision = settings.clipping_cap_subdivision) 
    51483 File
    51484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51485 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51486 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51487 File
    51488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51489 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51490 cm.set_geometry(varray, narray, tarray) 
    51491 File
    51492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51493 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51494 arv() 
    51495 File
    51496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51497 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51498 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51499 File
    51500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51501 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51502 s.vertex_colors = self.vertex_colors(report_stats) 
    51503 File
    51504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51505 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51506 values, outside = self.volume_values() 
    51507 File
    51508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51509 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51510 return self.offset_values(v, n, tf) 
    51511 File
    51512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51513 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51514 values, outside = self.vertex_values(v, xf) 
    51515 File
    51516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51517 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51518 out_of_bounds_list = True) 
    51519 File
    51520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51521 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51522 subregion, step) 
    51523 File
    51524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51525 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51526 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51527 File
    51528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51529 packages/chimerax/map/volume.py", line 1243, in
    51530 matrix_indices_to_xyz_transform 
    51531 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51532 File
    51533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51534 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51535 r = self.subregion(step, subregion) 
    51536 File
    51537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51538 packages/chimerax/map/volume.py", line 1558, in subregion 
    51539 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51540 AttributeError: 'NoneType' object has no attribute 'size' 
    51541  
    51542 AttributeError: 'NoneType' object has no attribute 'size' 
    51543  
    51544 File
    51545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51546 packages/chimerax/map/volume.py", line 1558, in subregion 
    51547 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51548  
    51549 See log for complete Python traceback. 
    51550  
    51551 Traceback (most recent call last): 
    51552 File
    51553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51554 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51555 drew = self.draw_new_frame() 
    51556 File
    51557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51558 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51559 surface.update_clip_caps(view) 
    51560 File
    51561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51562 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51563 subdivision = settings.clipping_cap_subdivision) 
    51564 File
    51565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51566 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51567 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51568 File
    51569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51570 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51571 cm.set_geometry(varray, narray, tarray) 
    51572 File
    51573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51574 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51575 arv() 
    51576 File
    51577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51578 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51579 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51580 File
    51581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51582 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51583 s.vertex_colors = self.vertex_colors(report_stats) 
    51584 File
    51585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51586 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51587 values, outside = self.volume_values() 
    51588 File
    51589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51590 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51591 return self.offset_values(v, n, tf) 
    51592 File
    51593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51594 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51595 values, outside = self.vertex_values(v, xf) 
    51596 File
    51597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51598 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51599 out_of_bounds_list = True) 
    51600 File
    51601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51602 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51603 subregion, step) 
    51604 File
    51605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51606 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51607 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51608 File
    51609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51610 packages/chimerax/map/volume.py", line 1243, in
    51611 matrix_indices_to_xyz_transform 
    51612 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51613 File
    51614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51615 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51616 r = self.subregion(step, subregion) 
    51617 File
    51618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51619 packages/chimerax/map/volume.py", line 1558, in subregion 
    51620 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51621 AttributeError: 'NoneType' object has no attribute 'size' 
    51622  
    51623 AttributeError: 'NoneType' object has no attribute 'size' 
    51624  
    51625 File
    51626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51627 packages/chimerax/map/volume.py", line 1558, in subregion 
    51628 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51629  
    51630 See log for complete Python traceback. 
    51631  
    51632 Traceback (most recent call last): 
    51633 File
    51634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51635 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51636 drew = self.draw_new_frame() 
    51637 File
    51638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51639 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51640 surface.update_clip_caps(view) 
    51641 File
    51642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51643 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51644 subdivision = settings.clipping_cap_subdivision) 
    51645 File
    51646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51647 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51648 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51649 File
    51650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51651 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51652 cm.set_geometry(varray, narray, tarray) 
    51653 File
    51654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51655 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51656 arv() 
    51657 File
    51658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51659 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51660 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51661 File
    51662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51663 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51664 s.vertex_colors = self.vertex_colors(report_stats) 
    51665 File
    51666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51667 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51668 values, outside = self.volume_values() 
    51669 File
    51670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51671 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51672 return self.offset_values(v, n, tf) 
    51673 File
    51674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51675 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51676 values, outside = self.vertex_values(v, xf) 
    51677 File
    51678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51679 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51680 out_of_bounds_list = True) 
    51681 File
    51682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51683 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51684 subregion, step) 
    51685 File
    51686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51687 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51688 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51689 File
    51690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51691 packages/chimerax/map/volume.py", line 1243, in
    51692 matrix_indices_to_xyz_transform 
    51693 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51694 File
    51695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51696 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51697 r = self.subregion(step, subregion) 
    51698 File
    51699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51700 packages/chimerax/map/volume.py", line 1558, in subregion 
    51701 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51702 AttributeError: 'NoneType' object has no attribute 'size' 
    51703  
    51704 AttributeError: 'NoneType' object has no attribute 'size' 
    51705  
    51706 File
    51707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51708 packages/chimerax/map/volume.py", line 1558, in subregion 
    51709 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51710  
    51711 See log for complete Python traceback. 
    51712  
    51713 Traceback (most recent call last): 
    51714 File
    51715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51716 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51717 drew = self.draw_new_frame() 
    51718 File
    51719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51720 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51721 surface.update_clip_caps(view) 
    51722 File
    51723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51724 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51725 subdivision = settings.clipping_cap_subdivision) 
    51726 File
    51727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51728 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51729 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51730 File
    51731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51732 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51733 cm.set_geometry(varray, narray, tarray) 
    51734 File
    51735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51736 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51737 arv() 
    51738 File
    51739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51740 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51741 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51742 File
    51743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51744 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51745 s.vertex_colors = self.vertex_colors(report_stats) 
    51746 File
    51747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51748 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51749 values, outside = self.volume_values() 
    51750 File
    51751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51752 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51753 return self.offset_values(v, n, tf) 
    51754 File
    51755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51756 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51757 values, outside = self.vertex_values(v, xf) 
    51758 File
    51759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51760 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51761 out_of_bounds_list = True) 
    51762 File
    51763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51764 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51765 subregion, step) 
    51766 File
    51767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51768 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51769 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51770 File
    51771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51772 packages/chimerax/map/volume.py", line 1243, in
    51773 matrix_indices_to_xyz_transform 
    51774 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51775 File
    51776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51777 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51778 r = self.subregion(step, subregion) 
    51779 File
    51780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51781 packages/chimerax/map/volume.py", line 1558, in subregion 
    51782 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51783 AttributeError: 'NoneType' object has no attribute 'size' 
    51784  
    51785 AttributeError: 'NoneType' object has no attribute 'size' 
    51786  
    51787 File
    51788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51789 packages/chimerax/map/volume.py", line 1558, in subregion 
    51790 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51791  
    51792 See log for complete Python traceback. 
    51793  
    51794 Traceback (most recent call last): 
    51795 File
    51796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51797 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51798 drew = self.draw_new_frame() 
    51799 File
    51800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51801 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51802 surface.update_clip_caps(view) 
    51803 File
    51804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51805 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51806 subdivision = settings.clipping_cap_subdivision) 
    51807 File
    51808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51809 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51810 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51811 File
    51812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51813 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51814 cm.set_geometry(varray, narray, tarray) 
    51815 File
    51816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51817 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51818 arv() 
    51819 File
    51820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51821 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51822 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51823 File
    51824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51825 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51826 s.vertex_colors = self.vertex_colors(report_stats) 
    51827 File
    51828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51829 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51830 values, outside = self.volume_values() 
    51831 File
    51832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51833 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51834 return self.offset_values(v, n, tf) 
    51835 File
    51836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51837 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51838 values, outside = self.vertex_values(v, xf) 
    51839 File
    51840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51841 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51842 out_of_bounds_list = True) 
    51843 File
    51844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51845 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51846 subregion, step) 
    51847 File
    51848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51849 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51850 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51851 File
    51852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51853 packages/chimerax/map/volume.py", line 1243, in
    51854 matrix_indices_to_xyz_transform 
    51855 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51856 File
    51857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51858 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51859 r = self.subregion(step, subregion) 
    51860 File
    51861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51862 packages/chimerax/map/volume.py", line 1558, in subregion 
    51863 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51864 AttributeError: 'NoneType' object has no attribute 'size' 
    51865  
    51866 AttributeError: 'NoneType' object has no attribute 'size' 
    51867  
    51868 File
    51869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51870 packages/chimerax/map/volume.py", line 1558, in subregion 
    51871 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51872  
    51873 See log for complete Python traceback. 
    51874  
    51875 Traceback (most recent call last): 
    51876 File
    51877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51878 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51879 drew = self.draw_new_frame() 
    51880 File
    51881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51882 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51883 surface.update_clip_caps(view) 
    51884 File
    51885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51886 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51887 subdivision = settings.clipping_cap_subdivision) 
    51888 File
    51889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51890 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51891 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51892 File
    51893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51894 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51895 cm.set_geometry(varray, narray, tarray) 
    51896 File
    51897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51898 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51899 arv() 
    51900 File
    51901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51902 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51903 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51904 File
    51905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51906 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51907 s.vertex_colors = self.vertex_colors(report_stats) 
    51908 File
    51909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51910 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51911 values, outside = self.volume_values() 
    51912 File
    51913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51914 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51915 return self.offset_values(v, n, tf) 
    51916 File
    51917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51918 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    51919 values, outside = self.vertex_values(v, xf) 
    51920 File
    51921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51922 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    51923 out_of_bounds_list = True) 
    51924 File
    51925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51926 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    51927 subregion, step) 
    51928 File
    51929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51930 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    51931 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    51932 File
    51933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51934 packages/chimerax/map/volume.py", line 1243, in
    51935 matrix_indices_to_xyz_transform 
    51936 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    51937 File
    51938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51939 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    51940 r = self.subregion(step, subregion) 
    51941 File
    51942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51943 packages/chimerax/map/volume.py", line 1558, in subregion 
    51944 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51945 AttributeError: 'NoneType' object has no attribute 'size' 
    51946  
    51947 AttributeError: 'NoneType' object has no attribute 'size' 
    51948  
    51949 File
    51950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51951 packages/chimerax/map/volume.py", line 1558, in subregion 
    51952 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    51953  
    51954 See log for complete Python traceback. 
    51955  
    51956 Traceback (most recent call last): 
    51957 File
    51958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51959 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    51960 drew = self.draw_new_frame() 
    51961 File
    51962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51963 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    51964 surface.update_clip_caps(view) 
    51965 File
    51966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51967 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    51968 subdivision = settings.clipping_cap_subdivision) 
    51969 File
    51970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51971 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    51972 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    51973 File
    51974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51975 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    51976 cm.set_geometry(varray, narray, tarray) 
    51977 File
    51978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51979 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    51980 arv() 
    51981 File
    51982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51983 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    51984 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    51985 File
    51986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51987 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    51988 s.vertex_colors = self.vertex_colors(report_stats) 
    51989 File
    51990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51991 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    51992 values, outside = self.volume_values() 
    51993 File
    51994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51995 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    51996 return self.offset_values(v, n, tf) 
    51997 File
    51998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    51999 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52000 values, outside = self.vertex_values(v, xf) 
    52001 File
    52002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52003 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52004 out_of_bounds_list = True) 
    52005 File
    52006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52007 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52008 subregion, step) 
    52009 File
    52010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52011 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52012 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52013 File
    52014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52015 packages/chimerax/map/volume.py", line 1243, in
    52016 matrix_indices_to_xyz_transform 
    52017 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52018 File
    52019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52020 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52021 r = self.subregion(step, subregion) 
    52022 File
    52023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52024 packages/chimerax/map/volume.py", line 1558, in subregion 
    52025 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52026 AttributeError: 'NoneType' object has no attribute 'size' 
    52027  
    52028 AttributeError: 'NoneType' object has no attribute 'size' 
    52029  
    52030 File
    52031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52032 packages/chimerax/map/volume.py", line 1558, in subregion 
    52033 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52034  
    52035 See log for complete Python traceback. 
    52036  
    52037 Traceback (most recent call last): 
    52038 File
    52039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52040 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52041 drew = self.draw_new_frame() 
    52042 File
    52043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52044 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52045 surface.update_clip_caps(view) 
    52046 File
    52047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52048 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52049 subdivision = settings.clipping_cap_subdivision) 
    52050 File
    52051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52052 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52053 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52054 File
    52055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52056 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52057 cm.set_geometry(varray, narray, tarray) 
    52058 File
    52059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52060 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52061 arv() 
    52062 File
    52063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52064 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52065 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52066 File
    52067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52068 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52069 s.vertex_colors = self.vertex_colors(report_stats) 
    52070 File
    52071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52072 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52073 values, outside = self.volume_values() 
    52074 File
    52075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52076 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52077 return self.offset_values(v, n, tf) 
    52078 File
    52079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52080 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52081 values, outside = self.vertex_values(v, xf) 
    52082 File
    52083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52084 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52085 out_of_bounds_list = True) 
    52086 File
    52087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52088 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52089 subregion, step) 
    52090 File
    52091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52092 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52093 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52094 File
    52095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52096 packages/chimerax/map/volume.py", line 1243, in
    52097 matrix_indices_to_xyz_transform 
    52098 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52099 File
    52100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52101 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52102 r = self.subregion(step, subregion) 
    52103 File
    52104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52105 packages/chimerax/map/volume.py", line 1558, in subregion 
    52106 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52107 AttributeError: 'NoneType' object has no attribute 'size' 
    52108  
    52109 AttributeError: 'NoneType' object has no attribute 'size' 
    52110  
    52111 File
    52112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52113 packages/chimerax/map/volume.py", line 1558, in subregion 
    52114 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52115  
    52116 See log for complete Python traceback. 
    52117  
    52118 Traceback (most recent call last): 
    52119 File
    52120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52121 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52122 drew = self.draw_new_frame() 
    52123 File
    52124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52125 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52126 surface.update_clip_caps(view) 
    52127 File
    52128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52129 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52130 subdivision = settings.clipping_cap_subdivision) 
    52131 File
    52132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52133 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52134 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52135 File
    52136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52137 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52138 cm.set_geometry(varray, narray, tarray) 
    52139 File
    52140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52141 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52142 arv() 
    52143 File
    52144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52145 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52146 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52147 File
    52148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52149 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52150 s.vertex_colors = self.vertex_colors(report_stats) 
    52151 File
    52152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52153 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52154 values, outside = self.volume_values() 
    52155 File
    52156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52157 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52158 return self.offset_values(v, n, tf) 
    52159 File
    52160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52161 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52162 values, outside = self.vertex_values(v, xf) 
    52163 File
    52164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52165 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52166 out_of_bounds_list = True) 
    52167 File
    52168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52169 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52170 subregion, step) 
    52171 File
    52172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52173 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52174 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52175 File
    52176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52177 packages/chimerax/map/volume.py", line 1243, in
    52178 matrix_indices_to_xyz_transform 
    52179 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52180 File
    52181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52182 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52183 r = self.subregion(step, subregion) 
    52184 File
    52185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52186 packages/chimerax/map/volume.py", line 1558, in subregion 
    52187 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52188 AttributeError: 'NoneType' object has no attribute 'size' 
    52189  
    52190 AttributeError: 'NoneType' object has no attribute 'size' 
    52191  
    52192 File
    52193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52194 packages/chimerax/map/volume.py", line 1558, in subregion 
    52195 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52196  
    52197 See log for complete Python traceback. 
    52198  
    52199 Traceback (most recent call last): 
    52200 File
    52201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52202 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52203 drew = self.draw_new_frame() 
    52204 File
    52205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52206 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52207 surface.update_clip_caps(view) 
    52208 File
    52209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52210 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52211 subdivision = settings.clipping_cap_subdivision) 
    52212 File
    52213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52214 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52215 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52216 File
    52217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52218 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52219 cm.set_geometry(varray, narray, tarray) 
    52220 File
    52221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52222 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52223 arv() 
    52224 File
    52225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52226 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52227 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52228 File
    52229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52230 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52231 s.vertex_colors = self.vertex_colors(report_stats) 
    52232 File
    52233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52234 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52235 values, outside = self.volume_values() 
    52236 File
    52237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52238 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52239 return self.offset_values(v, n, tf) 
    52240 File
    52241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52242 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52243 values, outside = self.vertex_values(v, xf) 
    52244 File
    52245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52246 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52247 out_of_bounds_list = True) 
    52248 File
    52249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52250 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52251 subregion, step) 
    52252 File
    52253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52254 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52255 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52256 File
    52257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52258 packages/chimerax/map/volume.py", line 1243, in
    52259 matrix_indices_to_xyz_transform 
    52260 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52261 File
    52262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52263 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52264 r = self.subregion(step, subregion) 
    52265 File
    52266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52267 packages/chimerax/map/volume.py", line 1558, in subregion 
    52268 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52269 AttributeError: 'NoneType' object has no attribute 'size' 
    52270  
    52271 AttributeError: 'NoneType' object has no attribute 'size' 
    52272  
    52273 File
    52274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52275 packages/chimerax/map/volume.py", line 1558, in subregion 
    52276 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52277  
    52278 See log for complete Python traceback. 
    52279  
    52280 Traceback (most recent call last): 
    52281 File
    52282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52283 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52284 drew = self.draw_new_frame() 
    52285 File
    52286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52287 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52288 surface.update_clip_caps(view) 
    52289 File
    52290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52291 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52292 subdivision = settings.clipping_cap_subdivision) 
    52293 File
    52294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52295 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52296 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52297 File
    52298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52299 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52300 cm.set_geometry(varray, narray, tarray) 
    52301 File
    52302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52303 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52304 arv() 
    52305 File
    52306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52307 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52308 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52309 File
    52310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52311 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52312 s.vertex_colors = self.vertex_colors(report_stats) 
    52313 File
    52314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52315 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52316 values, outside = self.volume_values() 
    52317 File
    52318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52319 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52320 return self.offset_values(v, n, tf) 
    52321 File
    52322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52323 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52324 values, outside = self.vertex_values(v, xf) 
    52325 File
    52326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52327 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52328 out_of_bounds_list = True) 
    52329 File
    52330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52331 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52332 subregion, step) 
    52333 File
    52334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52335 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52336 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52337 File
    52338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52339 packages/chimerax/map/volume.py", line 1243, in
    52340 matrix_indices_to_xyz_transform 
    52341 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52342 File
    52343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52344 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52345 r = self.subregion(step, subregion) 
    52346 File
    52347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52348 packages/chimerax/map/volume.py", line 1558, in subregion 
    52349 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52350 AttributeError: 'NoneType' object has no attribute 'size' 
    52351  
    52352 AttributeError: 'NoneType' object has no attribute 'size' 
    52353  
    52354 File
    52355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52356 packages/chimerax/map/volume.py", line 1558, in subregion 
    52357 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52358  
    52359 See log for complete Python traceback. 
    52360  
    52361 Traceback (most recent call last): 
    52362 File
    52363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52364 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52365 drew = self.draw_new_frame() 
    52366 File
    52367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52368 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52369 surface.update_clip_caps(view) 
    52370 File
    52371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52372 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52373 subdivision = settings.clipping_cap_subdivision) 
    52374 File
    52375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52376 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52377 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52378 File
    52379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52380 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52381 cm.set_geometry(varray, narray, tarray) 
    52382 File
    52383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52384 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52385 arv() 
    52386 File
    52387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52388 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52389 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52390 File
    52391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52392 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52393 s.vertex_colors = self.vertex_colors(report_stats) 
    52394 File
    52395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52396 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52397 values, outside = self.volume_values() 
    52398 File
    52399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52400 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52401 return self.offset_values(v, n, tf) 
    52402 File
    52403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52404 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52405 values, outside = self.vertex_values(v, xf) 
    52406 File
    52407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52408 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52409 out_of_bounds_list = True) 
    52410 File
    52411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52412 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52413 subregion, step) 
    52414 File
    52415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52416 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52417 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52418 File
    52419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52420 packages/chimerax/map/volume.py", line 1243, in
    52421 matrix_indices_to_xyz_transform 
    52422 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52423 File
    52424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52425 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52426 r = self.subregion(step, subregion) 
    52427 File
    52428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52429 packages/chimerax/map/volume.py", line 1558, in subregion 
    52430 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52431 AttributeError: 'NoneType' object has no attribute 'size' 
    52432  
    52433 AttributeError: 'NoneType' object has no attribute 'size' 
    52434  
    52435 File
    52436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52437 packages/chimerax/map/volume.py", line 1558, in subregion 
    52438 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52439  
    52440 See log for complete Python traceback. 
    52441  
    52442 Traceback (most recent call last): 
    52443 File
    52444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52445 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52446 drew = self.draw_new_frame() 
    52447 File
    52448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52449 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52450 surface.update_clip_caps(view) 
    52451 File
    52452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52453 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52454 subdivision = settings.clipping_cap_subdivision) 
    52455 File
    52456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52457 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52458 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52459 File
    52460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52461 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52462 cm.set_geometry(varray, narray, tarray) 
    52463 File
    52464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52465 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52466 arv() 
    52467 File
    52468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52469 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52470 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52471 File
    52472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52473 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52474 s.vertex_colors = self.vertex_colors(report_stats) 
    52475 File
    52476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52477 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52478 values, outside = self.volume_values() 
    52479 File
    52480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52481 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52482 return self.offset_values(v, n, tf) 
    52483 File
    52484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52485 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52486 values, outside = self.vertex_values(v, xf) 
    52487 File
    52488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52489 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52490 out_of_bounds_list = True) 
    52491 File
    52492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52493 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52494 subregion, step) 
    52495 File
    52496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52497 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52498 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52499 File
    52500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52501 packages/chimerax/map/volume.py", line 1243, in
    52502 matrix_indices_to_xyz_transform 
    52503 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52504 File
    52505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52506 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52507 r = self.subregion(step, subregion) 
    52508 File
    52509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52510 packages/chimerax/map/volume.py", line 1558, in subregion 
    52511 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52512 AttributeError: 'NoneType' object has no attribute 'size' 
    52513  
    52514 AttributeError: 'NoneType' object has no attribute 'size' 
    52515  
    52516 File
    52517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52518 packages/chimerax/map/volume.py", line 1558, in subregion 
    52519 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52520  
    52521 See log for complete Python traceback. 
    52522  
    52523 Traceback (most recent call last): 
    52524 File
    52525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52526 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52527 drew = self.draw_new_frame() 
    52528 File
    52529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52530 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52531 surface.update_clip_caps(view) 
    52532 File
    52533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52534 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52535 subdivision = settings.clipping_cap_subdivision) 
    52536 File
    52537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52538 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52539 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52540 File
    52541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52542 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52543 cm.set_geometry(varray, narray, tarray) 
    52544 File
    52545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52546 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52547 arv() 
    52548 File
    52549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52550 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52551 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52552 File
    52553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52554 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52555 s.vertex_colors = self.vertex_colors(report_stats) 
    52556 File
    52557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52558 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52559 values, outside = self.volume_values() 
    52560 File
    52561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52562 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52563 return self.offset_values(v, n, tf) 
    52564 File
    52565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52566 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52567 values, outside = self.vertex_values(v, xf) 
    52568 File
    52569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52570 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52571 out_of_bounds_list = True) 
    52572 File
    52573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52574 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52575 subregion, step) 
    52576 File
    52577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52578 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52579 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52580 File
    52581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52582 packages/chimerax/map/volume.py", line 1243, in
    52583 matrix_indices_to_xyz_transform 
    52584 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52585 File
    52586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52587 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52588 r = self.subregion(step, subregion) 
    52589 File
    52590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52591 packages/chimerax/map/volume.py", line 1558, in subregion 
    52592 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52593 AttributeError: 'NoneType' object has no attribute 'size' 
    52594  
    52595 AttributeError: 'NoneType' object has no attribute 'size' 
    52596  
    52597 File
    52598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52599 packages/chimerax/map/volume.py", line 1558, in subregion 
    52600 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52601  
    52602 See log for complete Python traceback. 
    52603  
    52604 Traceback (most recent call last): 
    52605 File
    52606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52607 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52608 drew = self.draw_new_frame() 
    52609 File
    52610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52611 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52612 surface.update_clip_caps(view) 
    52613 File
    52614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52615 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52616 subdivision = settings.clipping_cap_subdivision) 
    52617 File
    52618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52619 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52620 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52621 File
    52622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52623 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52624 cm.set_geometry(varray, narray, tarray) 
    52625 File
    52626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52627 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52628 arv() 
    52629 File
    52630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52631 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52632 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52633 File
    52634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52635 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52636 s.vertex_colors = self.vertex_colors(report_stats) 
    52637 File
    52638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52639 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52640 values, outside = self.volume_values() 
    52641 File
    52642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52643 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52644 return self.offset_values(v, n, tf) 
    52645 File
    52646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52647 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52648 values, outside = self.vertex_values(v, xf) 
    52649 File
    52650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52651 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52652 out_of_bounds_list = True) 
    52653 File
    52654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52655 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52656 subregion, step) 
    52657 File
    52658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52659 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52660 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52661 File
    52662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52663 packages/chimerax/map/volume.py", line 1243, in
    52664 matrix_indices_to_xyz_transform 
    52665 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52666 File
    52667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52668 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52669 r = self.subregion(step, subregion) 
    52670 File
    52671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52672 packages/chimerax/map/volume.py", line 1558, in subregion 
    52673 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52674 AttributeError: 'NoneType' object has no attribute 'size' 
    52675  
    52676 AttributeError: 'NoneType' object has no attribute 'size' 
    52677  
    52678 File
    52679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52680 packages/chimerax/map/volume.py", line 1558, in subregion 
    52681 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52682  
    52683 See log for complete Python traceback. 
    52684  
    52685 Traceback (most recent call last): 
    52686 File
    52687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52688 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52689 drew = self.draw_new_frame() 
    52690 File
    52691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52692 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52693 surface.update_clip_caps(view) 
    52694 File
    52695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52696 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52697 subdivision = settings.clipping_cap_subdivision) 
    52698 File
    52699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52700 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52701 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52702 File
    52703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52704 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52705 cm.set_geometry(varray, narray, tarray) 
    52706 File
    52707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52708 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52709 arv() 
    52710 File
    52711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52712 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52713 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52714 File
    52715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52716 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52717 s.vertex_colors = self.vertex_colors(report_stats) 
    52718 File
    52719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52720 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52721 values, outside = self.volume_values() 
    52722 File
    52723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52724 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52725 return self.offset_values(v, n, tf) 
    52726 File
    52727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52728 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52729 values, outside = self.vertex_values(v, xf) 
    52730 File
    52731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52732 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52733 out_of_bounds_list = True) 
    52734 File
    52735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52736 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52737 subregion, step) 
    52738 File
    52739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52740 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52741 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52742 File
    52743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52744 packages/chimerax/map/volume.py", line 1243, in
    52745 matrix_indices_to_xyz_transform 
    52746 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52747 File
    52748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52749 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52750 r = self.subregion(step, subregion) 
    52751 File
    52752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52753 packages/chimerax/map/volume.py", line 1558, in subregion 
    52754 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52755 AttributeError: 'NoneType' object has no attribute 'size' 
    52756  
    52757 AttributeError: 'NoneType' object has no attribute 'size' 
    52758  
    52759 File
    52760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52761 packages/chimerax/map/volume.py", line 1558, in subregion 
    52762 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52763  
    52764 See log for complete Python traceback. 
    52765  
    52766 Traceback (most recent call last): 
    52767 File
    52768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52769 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52770 drew = self.draw_new_frame() 
    52771 File
    52772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52773 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52774 surface.update_clip_caps(view) 
    52775 File
    52776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52777 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52778 subdivision = settings.clipping_cap_subdivision) 
    52779 File
    52780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52781 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52782 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52783 File
    52784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52785 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52786 cm.set_geometry(varray, narray, tarray) 
    52787 File
    52788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52789 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52790 arv() 
    52791 File
    52792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52793 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52794 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52795 File
    52796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52797 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52798 s.vertex_colors = self.vertex_colors(report_stats) 
    52799 File
    52800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52801 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52802 values, outside = self.volume_values() 
    52803 File
    52804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52805 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52806 return self.offset_values(v, n, tf) 
    52807 File
    52808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52809 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52810 values, outside = self.vertex_values(v, xf) 
    52811 File
    52812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52813 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52814 out_of_bounds_list = True) 
    52815 File
    52816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52817 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52818 subregion, step) 
    52819 File
    52820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52821 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52822 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52823 File
    52824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52825 packages/chimerax/map/volume.py", line 1243, in
    52826 matrix_indices_to_xyz_transform 
    52827 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52828 File
    52829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52830 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52831 r = self.subregion(step, subregion) 
    52832 File
    52833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52834 packages/chimerax/map/volume.py", line 1558, in subregion 
    52835 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52836 AttributeError: 'NoneType' object has no attribute 'size' 
    52837  
    52838 AttributeError: 'NoneType' object has no attribute 'size' 
    52839  
    52840 File
    52841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52842 packages/chimerax/map/volume.py", line 1558, in subregion 
    52843 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52844  
    52845 See log for complete Python traceback. 
    52846  
    52847 Traceback (most recent call last): 
    52848 File
    52849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52850 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52851 drew = self.draw_new_frame() 
    52852 File
    52853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52854 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52855 surface.update_clip_caps(view) 
    52856 File
    52857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52858 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52859 subdivision = settings.clipping_cap_subdivision) 
    52860 File
    52861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52862 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52863 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52864 File
    52865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52866 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52867 cm.set_geometry(varray, narray, tarray) 
    52868 File
    52869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52870 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52871 arv() 
    52872 File
    52873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52874 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52875 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52876 File
    52877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52878 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52879 s.vertex_colors = self.vertex_colors(report_stats) 
    52880 File
    52881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52882 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52883 values, outside = self.volume_values() 
    52884 File
    52885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52886 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52887 return self.offset_values(v, n, tf) 
    52888 File
    52889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52890 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52891 values, outside = self.vertex_values(v, xf) 
    52892 File
    52893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52894 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52895 out_of_bounds_list = True) 
    52896 File
    52897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52898 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52899 subregion, step) 
    52900 File
    52901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52902 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52903 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52904 File
    52905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52906 packages/chimerax/map/volume.py", line 1243, in
    52907 matrix_indices_to_xyz_transform 
    52908 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52909 File
    52910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52911 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52912 r = self.subregion(step, subregion) 
    52913 File
    52914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52915 packages/chimerax/map/volume.py", line 1558, in subregion 
    52916 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52917 AttributeError: 'NoneType' object has no attribute 'size' 
    52918  
    52919 AttributeError: 'NoneType' object has no attribute 'size' 
    52920  
    52921 File
    52922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52923 packages/chimerax/map/volume.py", line 1558, in subregion 
    52924 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52925  
    52926 See log for complete Python traceback. 
    52927  
    52928 Traceback (most recent call last): 
    52929 File
    52930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52931 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    52932 drew = self.draw_new_frame() 
    52933 File
    52934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52935 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    52936 surface.update_clip_caps(view) 
    52937 File
    52938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52939 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    52940 subdivision = settings.clipping_cap_subdivision) 
    52941 File
    52942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52943 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    52944 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    52945 File
    52946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52947 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    52948 cm.set_geometry(varray, narray, tarray) 
    52949 File
    52950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52951 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    52952 arv() 
    52953 File
    52954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52955 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    52956 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    52957 File
    52958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52959 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    52960 s.vertex_colors = self.vertex_colors(report_stats) 
    52961 File
    52962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52963 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    52964 values, outside = self.volume_values() 
    52965 File
    52966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52967 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    52968 return self.offset_values(v, n, tf) 
    52969 File
    52970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52971 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    52972 values, outside = self.vertex_values(v, xf) 
    52973 File
    52974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52975 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    52976 out_of_bounds_list = True) 
    52977 File
    52978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52979 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    52980 subregion, step) 
    52981 File
    52982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52983 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    52984 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    52985 File
    52986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52987 packages/chimerax/map/volume.py", line 1243, in
    52988 matrix_indices_to_xyz_transform 
    52989 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    52990 File
    52991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52992 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    52993 r = self.subregion(step, subregion) 
    52994 File
    52995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    52996 packages/chimerax/map/volume.py", line 1558, in subregion 
    52997 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    52998 AttributeError: 'NoneType' object has no attribute 'size' 
    52999  
    53000 AttributeError: 'NoneType' object has no attribute 'size' 
    53001  
    53002 File
    53003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53004 packages/chimerax/map/volume.py", line 1558, in subregion 
    53005 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53006  
    53007 See log for complete Python traceback. 
    53008  
    53009 Traceback (most recent call last): 
    53010 File
    53011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53012 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53013 drew = self.draw_new_frame() 
    53014 File
    53015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53016 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53017 surface.update_clip_caps(view) 
    53018 File
    53019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53020 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53021 subdivision = settings.clipping_cap_subdivision) 
    53022 File
    53023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53024 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53025 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53026 File
    53027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53028 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53029 cm.set_geometry(varray, narray, tarray) 
    53030 File
    53031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53032 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53033 arv() 
    53034 File
    53035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53036 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53037 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53038 File
    53039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53040 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53041 s.vertex_colors = self.vertex_colors(report_stats) 
    53042 File
    53043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53044 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53045 values, outside = self.volume_values() 
    53046 File
    53047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53048 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53049 return self.offset_values(v, n, tf) 
    53050 File
    53051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53052 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53053 values, outside = self.vertex_values(v, xf) 
    53054 File
    53055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53056 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53057 out_of_bounds_list = True) 
    53058 File
    53059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53060 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53061 subregion, step) 
    53062 File
    53063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53064 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53065 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53066 File
    53067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53068 packages/chimerax/map/volume.py", line 1243, in
    53069 matrix_indices_to_xyz_transform 
    53070 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53071 File
    53072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53073 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53074 r = self.subregion(step, subregion) 
    53075 File
    53076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53077 packages/chimerax/map/volume.py", line 1558, in subregion 
    53078 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53079 AttributeError: 'NoneType' object has no attribute 'size' 
    53080  
    53081 AttributeError: 'NoneType' object has no attribute 'size' 
    53082  
    53083 File
    53084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53085 packages/chimerax/map/volume.py", line 1558, in subregion 
    53086 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53087  
    53088 See log for complete Python traceback. 
    53089  
    53090 Traceback (most recent call last): 
    53091 File
    53092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53093 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53094 drew = self.draw_new_frame() 
    53095 File
    53096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53097 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53098 surface.update_clip_caps(view) 
    53099 File
    53100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53101 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53102 subdivision = settings.clipping_cap_subdivision) 
    53103 File
    53104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53105 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53106 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53107 File
    53108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53109 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53110 cm.set_geometry(varray, narray, tarray) 
    53111 File
    53112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53113 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53114 arv() 
    53115 File
    53116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53117 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53118 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53119 File
    53120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53121 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53122 s.vertex_colors = self.vertex_colors(report_stats) 
    53123 File
    53124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53125 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53126 values, outside = self.volume_values() 
    53127 File
    53128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53129 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53130 return self.offset_values(v, n, tf) 
    53131 File
    53132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53133 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53134 values, outside = self.vertex_values(v, xf) 
    53135 File
    53136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53137 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53138 out_of_bounds_list = True) 
    53139 File
    53140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53141 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53142 subregion, step) 
    53143 File
    53144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53145 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53146 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53147 File
    53148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53149 packages/chimerax/map/volume.py", line 1243, in
    53150 matrix_indices_to_xyz_transform 
    53151 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53152 File
    53153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53154 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53155 r = self.subregion(step, subregion) 
    53156 File
    53157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53158 packages/chimerax/map/volume.py", line 1558, in subregion 
    53159 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53160 AttributeError: 'NoneType' object has no attribute 'size' 
    53161  
    53162 AttributeError: 'NoneType' object has no attribute 'size' 
    53163  
    53164 File
    53165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53166 packages/chimerax/map/volume.py", line 1558, in subregion 
    53167 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53168  
    53169 See log for complete Python traceback. 
    53170  
    53171 Traceback (most recent call last): 
    53172 File
    53173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53174 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53175 drew = self.draw_new_frame() 
    53176 File
    53177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53178 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53179 surface.update_clip_caps(view) 
    53180 File
    53181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53182 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53183 subdivision = settings.clipping_cap_subdivision) 
    53184 File
    53185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53186 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53187 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53188 File
    53189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53190 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53191 cm.set_geometry(varray, narray, tarray) 
    53192 File
    53193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53194 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53195 arv() 
    53196 File
    53197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53198 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53199 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53200 File
    53201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53202 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53203 s.vertex_colors = self.vertex_colors(report_stats) 
    53204 File
    53205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53206 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53207 values, outside = self.volume_values() 
    53208 File
    53209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53210 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53211 return self.offset_values(v, n, tf) 
    53212 File
    53213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53214 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53215 values, outside = self.vertex_values(v, xf) 
    53216 File
    53217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53218 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53219 out_of_bounds_list = True) 
    53220 File
    53221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53222 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53223 subregion, step) 
    53224 File
    53225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53226 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53227 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53228 File
    53229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53230 packages/chimerax/map/volume.py", line 1243, in
    53231 matrix_indices_to_xyz_transform 
    53232 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53233 File
    53234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53235 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53236 r = self.subregion(step, subregion) 
    53237 File
    53238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53239 packages/chimerax/map/volume.py", line 1558, in subregion 
    53240 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53241 AttributeError: 'NoneType' object has no attribute 'size' 
    53242  
    53243 AttributeError: 'NoneType' object has no attribute 'size' 
    53244  
    53245 File
    53246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53247 packages/chimerax/map/volume.py", line 1558, in subregion 
    53248 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53249  
    53250 See log for complete Python traceback. 
    53251  
    53252 Traceback (most recent call last): 
    53253 File
    53254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53255 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53256 drew = self.draw_new_frame() 
    53257 File
    53258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53259 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53260 surface.update_clip_caps(view) 
    53261 File
    53262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53263 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53264 subdivision = settings.clipping_cap_subdivision) 
    53265 File
    53266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53267 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53268 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53269 File
    53270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53271 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53272 cm.set_geometry(varray, narray, tarray) 
    53273 File
    53274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53275 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53276 arv() 
    53277 File
    53278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53279 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53280 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53281 File
    53282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53283 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53284 s.vertex_colors = self.vertex_colors(report_stats) 
    53285 File
    53286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53287 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53288 values, outside = self.volume_values() 
    53289 File
    53290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53291 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53292 return self.offset_values(v, n, tf) 
    53293 File
    53294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53295 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53296 values, outside = self.vertex_values(v, xf) 
    53297 File
    53298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53299 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53300 out_of_bounds_list = True) 
    53301 File
    53302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53303 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53304 subregion, step) 
    53305 File
    53306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53307 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53308 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53309 File
    53310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53311 packages/chimerax/map/volume.py", line 1243, in
    53312 matrix_indices_to_xyz_transform 
    53313 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53314 File
    53315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53316 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53317 r = self.subregion(step, subregion) 
    53318 File
    53319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53320 packages/chimerax/map/volume.py", line 1558, in subregion 
    53321 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53322 AttributeError: 'NoneType' object has no attribute 'size' 
    53323  
    53324 AttributeError: 'NoneType' object has no attribute 'size' 
    53325  
    53326 File
    53327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53328 packages/chimerax/map/volume.py", line 1558, in subregion 
    53329 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53330  
    53331 See log for complete Python traceback. 
    53332  
    53333 Traceback (most recent call last): 
    53334 File
    53335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53336 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53337 drew = self.draw_new_frame() 
    53338 File
    53339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53340 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53341 surface.update_clip_caps(view) 
    53342 File
    53343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53344 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53345 subdivision = settings.clipping_cap_subdivision) 
    53346 File
    53347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53348 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53349 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53350 File
    53351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53352 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53353 cm.set_geometry(varray, narray, tarray) 
    53354 File
    53355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53356 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53357 arv() 
    53358 File
    53359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53360 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53361 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53362 File
    53363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53364 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53365 s.vertex_colors = self.vertex_colors(report_stats) 
    53366 File
    53367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53368 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53369 values, outside = self.volume_values() 
    53370 File
    53371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53372 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53373 return self.offset_values(v, n, tf) 
    53374 File
    53375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53376 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53377 values, outside = self.vertex_values(v, xf) 
    53378 File
    53379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53380 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53381 out_of_bounds_list = True) 
    53382 File
    53383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53384 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53385 subregion, step) 
    53386 File
    53387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53388 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53389 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53390 File
    53391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53392 packages/chimerax/map/volume.py", line 1243, in
    53393 matrix_indices_to_xyz_transform 
    53394 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53395 File
    53396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53397 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53398 r = self.subregion(step, subregion) 
    53399 File
    53400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53401 packages/chimerax/map/volume.py", line 1558, in subregion 
    53402 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53403 AttributeError: 'NoneType' object has no attribute 'size' 
    53404  
    53405 AttributeError: 'NoneType' object has no attribute 'size' 
    53406  
    53407 File
    53408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53409 packages/chimerax/map/volume.py", line 1558, in subregion 
    53410 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53411  
    53412 See log for complete Python traceback. 
    53413  
    53414 Traceback (most recent call last): 
    53415 File
    53416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53417 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53418 drew = self.draw_new_frame() 
    53419 File
    53420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53421 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53422 surface.update_clip_caps(view) 
    53423 File
    53424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53425 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53426 subdivision = settings.clipping_cap_subdivision) 
    53427 File
    53428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53429 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53430 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53431 File
    53432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53433 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53434 cm.set_geometry(varray, narray, tarray) 
    53435 File
    53436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53437 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53438 arv() 
    53439 File
    53440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53441 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53442 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53443 File
    53444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53445 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53446 s.vertex_colors = self.vertex_colors(report_stats) 
    53447 File
    53448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53449 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53450 values, outside = self.volume_values() 
    53451 File
    53452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53453 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53454 return self.offset_values(v, n, tf) 
    53455 File
    53456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53457 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53458 values, outside = self.vertex_values(v, xf) 
    53459 File
    53460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53461 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53462 out_of_bounds_list = True) 
    53463 File
    53464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53465 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53466 subregion, step) 
    53467 File
    53468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53469 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53470 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53471 File
    53472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53473 packages/chimerax/map/volume.py", line 1243, in
    53474 matrix_indices_to_xyz_transform 
    53475 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53476 File
    53477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53478 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53479 r = self.subregion(step, subregion) 
    53480 File
    53481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53482 packages/chimerax/map/volume.py", line 1558, in subregion 
    53483 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53484 AttributeError: 'NoneType' object has no attribute 'size' 
    53485  
    53486 AttributeError: 'NoneType' object has no attribute 'size' 
    53487  
    53488 File
    53489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53490 packages/chimerax/map/volume.py", line 1558, in subregion 
    53491 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53492  
    53493 See log for complete Python traceback. 
    53494  
    53495 Traceback (most recent call last): 
    53496 File
    53497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53498 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53499 drew = self.draw_new_frame() 
    53500 File
    53501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53502 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53503 surface.update_clip_caps(view) 
    53504 File
    53505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53506 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53507 subdivision = settings.clipping_cap_subdivision) 
    53508 File
    53509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53510 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53511 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53512 File
    53513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53514 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53515 cm.set_geometry(varray, narray, tarray) 
    53516 File
    53517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53518 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53519 arv() 
    53520 File
    53521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53522 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53523 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53524 File
    53525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53526 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53527 s.vertex_colors = self.vertex_colors(report_stats) 
    53528 File
    53529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53530 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53531 values, outside = self.volume_values() 
    53532 File
    53533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53534 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53535 return self.offset_values(v, n, tf) 
    53536 File
    53537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53538 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53539 values, outside = self.vertex_values(v, xf) 
    53540 File
    53541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53542 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53543 out_of_bounds_list = True) 
    53544 File
    53545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53546 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53547 subregion, step) 
    53548 File
    53549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53550 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53551 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53552 File
    53553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53554 packages/chimerax/map/volume.py", line 1243, in
    53555 matrix_indices_to_xyz_transform 
    53556 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53557 File
    53558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53559 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53560 r = self.subregion(step, subregion) 
    53561 File
    53562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53563 packages/chimerax/map/volume.py", line 1558, in subregion 
    53564 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53565 AttributeError: 'NoneType' object has no attribute 'size' 
    53566  
    53567 AttributeError: 'NoneType' object has no attribute 'size' 
    53568  
    53569 File
    53570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53571 packages/chimerax/map/volume.py", line 1558, in subregion 
    53572 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53573  
    53574 See log for complete Python traceback. 
    53575  
    53576 Traceback (most recent call last): 
    53577 File
    53578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53579 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53580 drew = self.draw_new_frame() 
    53581 File
    53582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53583 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53584 surface.update_clip_caps(view) 
    53585 File
    53586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53587 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53588 subdivision = settings.clipping_cap_subdivision) 
    53589 File
    53590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53591 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53592 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53593 File
    53594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53595 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53596 cm.set_geometry(varray, narray, tarray) 
    53597 File
    53598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53599 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53600 arv() 
    53601 File
    53602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53603 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53604 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53605 File
    53606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53607 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53608 s.vertex_colors = self.vertex_colors(report_stats) 
    53609 File
    53610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53611 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53612 values, outside = self.volume_values() 
    53613 File
    53614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53615 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53616 return self.offset_values(v, n, tf) 
    53617 File
    53618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53619 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53620 values, outside = self.vertex_values(v, xf) 
    53621 File
    53622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53623 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53624 out_of_bounds_list = True) 
    53625 File
    53626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53627 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53628 subregion, step) 
    53629 File
    53630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53631 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53632 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53633 File
    53634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53635 packages/chimerax/map/volume.py", line 1243, in
    53636 matrix_indices_to_xyz_transform 
    53637 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53638 File
    53639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53640 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53641 r = self.subregion(step, subregion) 
    53642 File
    53643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53644 packages/chimerax/map/volume.py", line 1558, in subregion 
    53645 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53646 AttributeError: 'NoneType' object has no attribute 'size' 
    53647  
    53648 AttributeError: 'NoneType' object has no attribute 'size' 
    53649  
    53650 File
    53651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53652 packages/chimerax/map/volume.py", line 1558, in subregion 
    53653 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53654  
    53655 See log for complete Python traceback. 
    53656  
    53657 Traceback (most recent call last): 
    53658 File
    53659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53660 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53661 drew = self.draw_new_frame() 
    53662 File
    53663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53664 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53665 surface.update_clip_caps(view) 
    53666 File
    53667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53668 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53669 subdivision = settings.clipping_cap_subdivision) 
    53670 File
    53671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53672 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53673 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53674 File
    53675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53676 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53677 cm.set_geometry(varray, narray, tarray) 
    53678 File
    53679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53680 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53681 arv() 
    53682 File
    53683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53684 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53685 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53686 File
    53687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53688 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53689 s.vertex_colors = self.vertex_colors(report_stats) 
    53690 File
    53691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53692 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53693 values, outside = self.volume_values() 
    53694 File
    53695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53696 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53697 return self.offset_values(v, n, tf) 
    53698 File
    53699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53700 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53701 values, outside = self.vertex_values(v, xf) 
    53702 File
    53703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53704 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53705 out_of_bounds_list = True) 
    53706 File
    53707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53708 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53709 subregion, step) 
    53710 File
    53711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53712 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53713 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53714 File
    53715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53716 packages/chimerax/map/volume.py", line 1243, in
    53717 matrix_indices_to_xyz_transform 
    53718 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53719 File
    53720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53721 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53722 r = self.subregion(step, subregion) 
    53723 File
    53724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53725 packages/chimerax/map/volume.py", line 1558, in subregion 
    53726 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53727 AttributeError: 'NoneType' object has no attribute 'size' 
    53728  
    53729 AttributeError: 'NoneType' object has no attribute 'size' 
    53730  
    53731 File
    53732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53733 packages/chimerax/map/volume.py", line 1558, in subregion 
    53734 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53735  
    53736 See log for complete Python traceback. 
    53737  
    53738 Traceback (most recent call last): 
    53739 File
    53740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53741 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53742 drew = self.draw_new_frame() 
    53743 File
    53744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53745 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53746 surface.update_clip_caps(view) 
    53747 File
    53748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53749 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53750 subdivision = settings.clipping_cap_subdivision) 
    53751 File
    53752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53753 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53754 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53755 File
    53756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53757 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53758 cm.set_geometry(varray, narray, tarray) 
    53759 File
    53760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53761 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53762 arv() 
    53763 File
    53764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53765 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53766 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53767 File
    53768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53769 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53770 s.vertex_colors = self.vertex_colors(report_stats) 
    53771 File
    53772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53773 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53774 values, outside = self.volume_values() 
    53775 File
    53776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53777 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53778 return self.offset_values(v, n, tf) 
    53779 File
    53780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53781 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53782 values, outside = self.vertex_values(v, xf) 
    53783 File
    53784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53785 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53786 out_of_bounds_list = True) 
    53787 File
    53788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53789 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53790 subregion, step) 
    53791 File
    53792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53793 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53794 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53795 File
    53796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53797 packages/chimerax/map/volume.py", line 1243, in
    53798 matrix_indices_to_xyz_transform 
    53799 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53800 File
    53801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53802 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53803 r = self.subregion(step, subregion) 
    53804 File
    53805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53806 packages/chimerax/map/volume.py", line 1558, in subregion 
    53807 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53808 AttributeError: 'NoneType' object has no attribute 'size' 
    53809  
    53810 AttributeError: 'NoneType' object has no attribute 'size' 
    53811  
    53812 File
    53813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53814 packages/chimerax/map/volume.py", line 1558, in subregion 
    53815 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53816  
    53817 See log for complete Python traceback. 
    53818  
    53819 Traceback (most recent call last): 
    53820 File
    53821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53822 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53823 drew = self.draw_new_frame() 
    53824 File
    53825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53826 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53827 surface.update_clip_caps(view) 
    53828 File
    53829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53830 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53831 subdivision = settings.clipping_cap_subdivision) 
    53832 File
    53833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53834 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53835 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53836 File
    53837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53838 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53839 cm.set_geometry(varray, narray, tarray) 
    53840 File
    53841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53842 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53843 arv() 
    53844 File
    53845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53846 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53847 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53848 File
    53849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53850 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53851 s.vertex_colors = self.vertex_colors(report_stats) 
    53852 File
    53853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53854 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53855 values, outside = self.volume_values() 
    53856 File
    53857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53858 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53859 return self.offset_values(v, n, tf) 
    53860 File
    53861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53862 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53863 values, outside = self.vertex_values(v, xf) 
    53864 File
    53865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53866 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53867 out_of_bounds_list = True) 
    53868 File
    53869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53870 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53871 subregion, step) 
    53872 File
    53873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53874 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53875 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53876 File
    53877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53878 packages/chimerax/map/volume.py", line 1243, in
    53879 matrix_indices_to_xyz_transform 
    53880 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53881 File
    53882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53883 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53884 r = self.subregion(step, subregion) 
    53885 File
    53886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53887 packages/chimerax/map/volume.py", line 1558, in subregion 
    53888 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53889 AttributeError: 'NoneType' object has no attribute 'size' 
    53890  
    53891 AttributeError: 'NoneType' object has no attribute 'size' 
    53892  
    53893 File
    53894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53895 packages/chimerax/map/volume.py", line 1558, in subregion 
    53896 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53897  
    53898 See log for complete Python traceback. 
    53899  
    53900 Traceback (most recent call last): 
    53901 File
    53902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53903 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53904 drew = self.draw_new_frame() 
    53905 File
    53906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53907 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53908 surface.update_clip_caps(view) 
    53909 File
    53910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53911 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53912 subdivision = settings.clipping_cap_subdivision) 
    53913 File
    53914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53915 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53916 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53917 File
    53918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53919 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    53920 cm.set_geometry(varray, narray, tarray) 
    53921 File
    53922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53923 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    53924 arv() 
    53925 File
    53926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53927 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    53928 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    53929 File
    53930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53931 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    53932 s.vertex_colors = self.vertex_colors(report_stats) 
    53933 File
    53934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53935 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    53936 values, outside = self.volume_values() 
    53937 File
    53938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53939 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    53940 return self.offset_values(v, n, tf) 
    53941 File
    53942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53943 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    53944 values, outside = self.vertex_values(v, xf) 
    53945 File
    53946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53947 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    53948 out_of_bounds_list = True) 
    53949 File
    53950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53951 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    53952 subregion, step) 
    53953 File
    53954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53955 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    53956 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    53957 File
    53958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53959 packages/chimerax/map/volume.py", line 1243, in
    53960 matrix_indices_to_xyz_transform 
    53961 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    53962 File
    53963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53964 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    53965 r = self.subregion(step, subregion) 
    53966 File
    53967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53968 packages/chimerax/map/volume.py", line 1558, in subregion 
    53969 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53970 AttributeError: 'NoneType' object has no attribute 'size' 
    53971  
    53972 AttributeError: 'NoneType' object has no attribute 'size' 
    53973  
    53974 File
    53975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53976 packages/chimerax/map/volume.py", line 1558, in subregion 
    53977 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    53978  
    53979 See log for complete Python traceback. 
    53980  
    53981 Traceback (most recent call last): 
    53982 File
    53983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53984 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    53985 drew = self.draw_new_frame() 
    53986 File
    53987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53988 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    53989 surface.update_clip_caps(view) 
    53990 File
    53991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53992 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    53993 subdivision = settings.clipping_cap_subdivision) 
    53994 File
    53995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    53996 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    53997 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    53998 File
    53999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54000 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54001 cm.set_geometry(varray, narray, tarray) 
    54002 File
    54003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54004 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54005 arv() 
    54006 File
    54007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54008 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54009 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54010 File
    54011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54012 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54013 s.vertex_colors = self.vertex_colors(report_stats) 
    54014 File
    54015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54016 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54017 values, outside = self.volume_values() 
    54018 File
    54019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54020 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54021 return self.offset_values(v, n, tf) 
    54022 File
    54023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54024 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54025 values, outside = self.vertex_values(v, xf) 
    54026 File
    54027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54028 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54029 out_of_bounds_list = True) 
    54030 File
    54031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54032 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54033 subregion, step) 
    54034 File
    54035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54036 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54037 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54038 File
    54039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54040 packages/chimerax/map/volume.py", line 1243, in
    54041 matrix_indices_to_xyz_transform 
    54042 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54043 File
    54044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54045 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54046 r = self.subregion(step, subregion) 
    54047 File
    54048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54049 packages/chimerax/map/volume.py", line 1558, in subregion 
    54050 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54051 AttributeError: 'NoneType' object has no attribute 'size' 
    54052  
    54053 AttributeError: 'NoneType' object has no attribute 'size' 
    54054  
    54055 File
    54056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54057 packages/chimerax/map/volume.py", line 1558, in subregion 
    54058 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54059  
    54060 See log for complete Python traceback. 
    54061  
    54062 Traceback (most recent call last): 
    54063 File
    54064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54065 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54066 drew = self.draw_new_frame() 
    54067 File
    54068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54069 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54070 surface.update_clip_caps(view) 
    54071 File
    54072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54073 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54074 subdivision = settings.clipping_cap_subdivision) 
    54075 File
    54076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54077 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54078 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54079 File
    54080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54081 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54082 cm.set_geometry(varray, narray, tarray) 
    54083 File
    54084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54085 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54086 arv() 
    54087 File
    54088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54089 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54090 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54091 File
    54092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54093 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54094 s.vertex_colors = self.vertex_colors(report_stats) 
    54095 File
    54096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54097 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54098 values, outside = self.volume_values() 
    54099 File
    54100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54101 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54102 return self.offset_values(v, n, tf) 
    54103 File
    54104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54105 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54106 values, outside = self.vertex_values(v, xf) 
    54107 File
    54108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54109 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54110 out_of_bounds_list = True) 
    54111 File
    54112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54113 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54114 subregion, step) 
    54115 File
    54116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54117 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54118 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54119 File
    54120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54121 packages/chimerax/map/volume.py", line 1243, in
    54122 matrix_indices_to_xyz_transform 
    54123 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54124 File
    54125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54126 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54127 r = self.subregion(step, subregion) 
    54128 File
    54129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54130 packages/chimerax/map/volume.py", line 1558, in subregion 
    54131 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54132 AttributeError: 'NoneType' object has no attribute 'size' 
    54133  
    54134 AttributeError: 'NoneType' object has no attribute 'size' 
    54135  
    54136 File
    54137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54138 packages/chimerax/map/volume.py", line 1558, in subregion 
    54139 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54140  
    54141 See log for complete Python traceback. 
    54142  
    54143 Traceback (most recent call last): 
    54144 File
    54145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54146 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54147 drew = self.draw_new_frame() 
    54148 File
    54149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54150 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54151 surface.update_clip_caps(view) 
    54152 File
    54153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54154 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54155 subdivision = settings.clipping_cap_subdivision) 
    54156 File
    54157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54158 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54159 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54160 File
    54161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54162 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54163 cm.set_geometry(varray, narray, tarray) 
    54164 File
    54165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54166 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54167 arv() 
    54168 File
    54169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54170 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54171 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54172 File
    54173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54174 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54175 s.vertex_colors = self.vertex_colors(report_stats) 
    54176 File
    54177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54178 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54179 values, outside = self.volume_values() 
    54180 File
    54181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54182 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54183 return self.offset_values(v, n, tf) 
    54184 File
    54185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54186 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54187 values, outside = self.vertex_values(v, xf) 
    54188 File
    54189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54190 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54191 out_of_bounds_list = True) 
    54192 File
    54193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54194 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54195 subregion, step) 
    54196 File
    54197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54198 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54199 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54200 File
    54201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54202 packages/chimerax/map/volume.py", line 1243, in
    54203 matrix_indices_to_xyz_transform 
    54204 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54205 File
    54206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54207 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54208 r = self.subregion(step, subregion) 
    54209 File
    54210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54211 packages/chimerax/map/volume.py", line 1558, in subregion 
    54212 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54213 AttributeError: 'NoneType' object has no attribute 'size' 
    54214  
    54215 AttributeError: 'NoneType' object has no attribute 'size' 
    54216  
    54217 File
    54218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54219 packages/chimerax/map/volume.py", line 1558, in subregion 
    54220 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54221  
    54222 See log for complete Python traceback. 
    54223  
    54224 Traceback (most recent call last): 
    54225 File
    54226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54227 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54228 drew = self.draw_new_frame() 
    54229 File
    54230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54231 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54232 surface.update_clip_caps(view) 
    54233 File
    54234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54235 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54236 subdivision = settings.clipping_cap_subdivision) 
    54237 File
    54238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54239 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54240 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54241 File
    54242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54243 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54244 cm.set_geometry(varray, narray, tarray) 
    54245 File
    54246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54247 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54248 arv() 
    54249 File
    54250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54251 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54252 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54253 File
    54254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54255 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54256 s.vertex_colors = self.vertex_colors(report_stats) 
    54257 File
    54258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54259 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54260 values, outside = self.volume_values() 
    54261 File
    54262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54263 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54264 return self.offset_values(v, n, tf) 
    54265 File
    54266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54267 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54268 values, outside = self.vertex_values(v, xf) 
    54269 File
    54270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54271 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54272 out_of_bounds_list = True) 
    54273 File
    54274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54275 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54276 subregion, step) 
    54277 File
    54278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54279 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54280 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54281 File
    54282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54283 packages/chimerax/map/volume.py", line 1243, in
    54284 matrix_indices_to_xyz_transform 
    54285 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54286 File
    54287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54288 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54289 r = self.subregion(step, subregion) 
    54290 File
    54291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54292 packages/chimerax/map/volume.py", line 1558, in subregion 
    54293 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54294 AttributeError: 'NoneType' object has no attribute 'size' 
    54295  
    54296 AttributeError: 'NoneType' object has no attribute 'size' 
    54297  
    54298 File
    54299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54300 packages/chimerax/map/volume.py", line 1558, in subregion 
    54301 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54302  
    54303 See log for complete Python traceback. 
    54304  
    54305 Traceback (most recent call last): 
    54306 File
    54307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54308 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54309 drew = self.draw_new_frame() 
    54310 File
    54311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54312 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54313 surface.update_clip_caps(view) 
    54314 File
    54315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54316 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54317 subdivision = settings.clipping_cap_subdivision) 
    54318 File
    54319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54320 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54321 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54322 File
    54323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54324 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54325 cm.set_geometry(varray, narray, tarray) 
    54326 File
    54327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54328 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54329 arv() 
    54330 File
    54331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54332 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54333 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54334 File
    54335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54336 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54337 s.vertex_colors = self.vertex_colors(report_stats) 
    54338 File
    54339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54340 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54341 values, outside = self.volume_values() 
    54342 File
    54343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54344 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54345 return self.offset_values(v, n, tf) 
    54346 File
    54347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54348 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54349 values, outside = self.vertex_values(v, xf) 
    54350 File
    54351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54352 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54353 out_of_bounds_list = True) 
    54354 File
    54355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54356 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54357 subregion, step) 
    54358 File
    54359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54360 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54361 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54362 File
    54363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54364 packages/chimerax/map/volume.py", line 1243, in
    54365 matrix_indices_to_xyz_transform 
    54366 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54367 File
    54368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54369 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54370 r = self.subregion(step, subregion) 
    54371 File
    54372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54373 packages/chimerax/map/volume.py", line 1558, in subregion 
    54374 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54375 AttributeError: 'NoneType' object has no attribute 'size' 
    54376  
    54377 AttributeError: 'NoneType' object has no attribute 'size' 
    54378  
    54379 File
    54380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54381 packages/chimerax/map/volume.py", line 1558, in subregion 
    54382 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54383  
    54384 See log for complete Python traceback. 
    54385  
    54386 Traceback (most recent call last): 
    54387 File
    54388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54389 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54390 drew = self.draw_new_frame() 
    54391 File
    54392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54393 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54394 surface.update_clip_caps(view) 
    54395 File
    54396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54397 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54398 subdivision = settings.clipping_cap_subdivision) 
    54399 File
    54400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54401 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54402 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54403 File
    54404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54405 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54406 cm.set_geometry(varray, narray, tarray) 
    54407 File
    54408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54409 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54410 arv() 
    54411 File
    54412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54413 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54414 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54415 File
    54416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54417 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54418 s.vertex_colors = self.vertex_colors(report_stats) 
    54419 File
    54420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54421 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54422 values, outside = self.volume_values() 
    54423 File
    54424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54425 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54426 return self.offset_values(v, n, tf) 
    54427 File
    54428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54429 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54430 values, outside = self.vertex_values(v, xf) 
    54431 File
    54432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54433 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54434 out_of_bounds_list = True) 
    54435 File
    54436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54437 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54438 subregion, step) 
    54439 File
    54440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54441 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54442 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54443 File
    54444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54445 packages/chimerax/map/volume.py", line 1243, in
    54446 matrix_indices_to_xyz_transform 
    54447 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54448 File
    54449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54450 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54451 r = self.subregion(step, subregion) 
    54452 File
    54453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54454 packages/chimerax/map/volume.py", line 1558, in subregion 
    54455 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54456 AttributeError: 'NoneType' object has no attribute 'size' 
    54457  
    54458 AttributeError: 'NoneType' object has no attribute 'size' 
    54459  
    54460 File
    54461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54462 packages/chimerax/map/volume.py", line 1558, in subregion 
    54463 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54464  
    54465 See log for complete Python traceback. 
    54466  
    54467 Traceback (most recent call last): 
    54468 File
    54469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54470 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54471 drew = self.draw_new_frame() 
    54472 File
    54473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54474 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54475 surface.update_clip_caps(view) 
    54476 File
    54477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54478 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54479 subdivision = settings.clipping_cap_subdivision) 
    54480 File
    54481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54482 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54483 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54484 File
    54485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54486 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54487 cm.set_geometry(varray, narray, tarray) 
    54488 File
    54489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54490 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54491 arv() 
    54492 File
    54493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54494 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54495 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54496 File
    54497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54498 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54499 s.vertex_colors = self.vertex_colors(report_stats) 
    54500 File
    54501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54502 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54503 values, outside = self.volume_values() 
    54504 File
    54505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54506 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54507 return self.offset_values(v, n, tf) 
    54508 File
    54509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54510 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54511 values, outside = self.vertex_values(v, xf) 
    54512 File
    54513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54514 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54515 out_of_bounds_list = True) 
    54516 File
    54517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54518 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54519 subregion, step) 
    54520 File
    54521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54522 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54523 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54524 File
    54525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54526 packages/chimerax/map/volume.py", line 1243, in
    54527 matrix_indices_to_xyz_transform 
    54528 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54529 File
    54530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54531 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54532 r = self.subregion(step, subregion) 
    54533 File
    54534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54535 packages/chimerax/map/volume.py", line 1558, in subregion 
    54536 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54537 AttributeError: 'NoneType' object has no attribute 'size' 
    54538  
    54539 AttributeError: 'NoneType' object has no attribute 'size' 
    54540  
    54541 File
    54542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54543 packages/chimerax/map/volume.py", line 1558, in subregion 
    54544 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54545  
    54546 See log for complete Python traceback. 
    54547  
    54548 Traceback (most recent call last): 
    54549 File
    54550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54551 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54552 drew = self.draw_new_frame() 
    54553 File
    54554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54555 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54556 surface.update_clip_caps(view) 
    54557 File
    54558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54559 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54560 subdivision = settings.clipping_cap_subdivision) 
    54561 File
    54562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54563 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54564 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54565 File
    54566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54567 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54568 cm.set_geometry(varray, narray, tarray) 
    54569 File
    54570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54571 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54572 arv() 
    54573 File
    54574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54575 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54576 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54577 File
    54578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54579 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54580 s.vertex_colors = self.vertex_colors(report_stats) 
    54581 File
    54582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54583 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54584 values, outside = self.volume_values() 
    54585 File
    54586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54587 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54588 return self.offset_values(v, n, tf) 
    54589 File
    54590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54591 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54592 values, outside = self.vertex_values(v, xf) 
    54593 File
    54594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54595 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54596 out_of_bounds_list = True) 
    54597 File
    54598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54599 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54600 subregion, step) 
    54601 File
    54602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54603 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54604 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54605 File
    54606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54607 packages/chimerax/map/volume.py", line 1243, in
    54608 matrix_indices_to_xyz_transform 
    54609 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54610 File
    54611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54612 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54613 r = self.subregion(step, subregion) 
    54614 File
    54615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54616 packages/chimerax/map/volume.py", line 1558, in subregion 
    54617 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54618 AttributeError: 'NoneType' object has no attribute 'size' 
    54619  
    54620 AttributeError: 'NoneType' object has no attribute 'size' 
    54621  
    54622 File
    54623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54624 packages/chimerax/map/volume.py", line 1558, in subregion 
    54625 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54626  
    54627 See log for complete Python traceback. 
    54628  
    54629 Traceback (most recent call last): 
    54630 File
    54631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54632 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54633 drew = self.draw_new_frame() 
    54634 File
    54635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54636 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54637 surface.update_clip_caps(view) 
    54638 File
    54639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54640 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54641 subdivision = settings.clipping_cap_subdivision) 
    54642 File
    54643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54644 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54645 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54646 File
    54647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54648 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54649 cm.set_geometry(varray, narray, tarray) 
    54650 File
    54651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54652 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54653 arv() 
    54654 File
    54655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54656 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54657 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54658 File
    54659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54660 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54661 s.vertex_colors = self.vertex_colors(report_stats) 
    54662 File
    54663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54664 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54665 values, outside = self.volume_values() 
    54666 File
    54667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54668 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54669 return self.offset_values(v, n, tf) 
    54670 File
    54671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54672 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54673 values, outside = self.vertex_values(v, xf) 
    54674 File
    54675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54676 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54677 out_of_bounds_list = True) 
    54678 File
    54679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54680 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54681 subregion, step) 
    54682 File
    54683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54684 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54685 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54686 File
    54687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54688 packages/chimerax/map/volume.py", line 1243, in
    54689 matrix_indices_to_xyz_transform 
    54690 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54691 File
    54692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54693 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54694 r = self.subregion(step, subregion) 
    54695 File
    54696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54697 packages/chimerax/map/volume.py", line 1558, in subregion 
    54698 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54699 AttributeError: 'NoneType' object has no attribute 'size' 
    54700  
    54701 AttributeError: 'NoneType' object has no attribute 'size' 
    54702  
    54703 File
    54704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54705 packages/chimerax/map/volume.py", line 1558, in subregion 
    54706 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54707  
    54708 See log for complete Python traceback. 
    54709  
    54710 Traceback (most recent call last): 
    54711 File
    54712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54713 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54714 drew = self.draw_new_frame() 
    54715 File
    54716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54717 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54718 surface.update_clip_caps(view) 
    54719 File
    54720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54721 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54722 subdivision = settings.clipping_cap_subdivision) 
    54723 File
    54724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54725 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54726 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54727 File
    54728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54729 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54730 cm.set_geometry(varray, narray, tarray) 
    54731 File
    54732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54733 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54734 arv() 
    54735 File
    54736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54737 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54738 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54739 File
    54740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54741 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54742 s.vertex_colors = self.vertex_colors(report_stats) 
    54743 File
    54744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54745 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54746 values, outside = self.volume_values() 
    54747 File
    54748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54749 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54750 return self.offset_values(v, n, tf) 
    54751 File
    54752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54753 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54754 values, outside = self.vertex_values(v, xf) 
    54755 File
    54756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54757 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54758 out_of_bounds_list = True) 
    54759 File
    54760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54761 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54762 subregion, step) 
    54763 File
    54764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54765 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54766 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54767 File
    54768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54769 packages/chimerax/map/volume.py", line 1243, in
    54770 matrix_indices_to_xyz_transform 
    54771 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54772 File
    54773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54774 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54775 r = self.subregion(step, subregion) 
    54776 File
    54777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54778 packages/chimerax/map/volume.py", line 1558, in subregion 
    54779 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54780 AttributeError: 'NoneType' object has no attribute 'size' 
    54781  
    54782 AttributeError: 'NoneType' object has no attribute 'size' 
    54783  
    54784 File
    54785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54786 packages/chimerax/map/volume.py", line 1558, in subregion 
    54787 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54788  
    54789 See log for complete Python traceback. 
    54790  
    54791 Traceback (most recent call last): 
    54792 File
    54793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54794 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54795 drew = self.draw_new_frame() 
    54796 File
    54797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54798 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54799 surface.update_clip_caps(view) 
    54800 File
    54801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54802 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54803 subdivision = settings.clipping_cap_subdivision) 
    54804 File
    54805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54806 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54807 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54808 File
    54809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54810 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54811 cm.set_geometry(varray, narray, tarray) 
    54812 File
    54813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54814 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54815 arv() 
    54816 File
    54817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54818 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54819 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54820 File
    54821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54822 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54823 s.vertex_colors = self.vertex_colors(report_stats) 
    54824 File
    54825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54826 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54827 values, outside = self.volume_values() 
    54828 File
    54829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54830 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54831 return self.offset_values(v, n, tf) 
    54832 File
    54833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54834 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54835 values, outside = self.vertex_values(v, xf) 
    54836 File
    54837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54838 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54839 out_of_bounds_list = True) 
    54840 File
    54841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54842 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54843 subregion, step) 
    54844 File
    54845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54846 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54847 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54848 File
    54849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54850 packages/chimerax/map/volume.py", line 1243, in
    54851 matrix_indices_to_xyz_transform 
    54852 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54853 File
    54854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54855 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54856 r = self.subregion(step, subregion) 
    54857 File
    54858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54859 packages/chimerax/map/volume.py", line 1558, in subregion 
    54860 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54861 AttributeError: 'NoneType' object has no attribute 'size' 
    54862  
    54863 AttributeError: 'NoneType' object has no attribute 'size' 
    54864  
    54865 File
    54866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54867 packages/chimerax/map/volume.py", line 1558, in subregion 
    54868 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54869  
    54870 See log for complete Python traceback. 
    54871  
    54872 Traceback (most recent call last): 
    54873 File
    54874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54875 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54876 drew = self.draw_new_frame() 
    54877 File
    54878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54879 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54880 surface.update_clip_caps(view) 
    54881 File
    54882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54883 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54884 subdivision = settings.clipping_cap_subdivision) 
    54885 File
    54886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54887 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54888 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54889 File
    54890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54891 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54892 cm.set_geometry(varray, narray, tarray) 
    54893 File
    54894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54895 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54896 arv() 
    54897 File
    54898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54899 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54900 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54901 File
    54902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54903 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54904 s.vertex_colors = self.vertex_colors(report_stats) 
    54905 File
    54906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54907 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54908 values, outside = self.volume_values() 
    54909 File
    54910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54911 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54912 return self.offset_values(v, n, tf) 
    54913 File
    54914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54915 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54916 values, outside = self.vertex_values(v, xf) 
    54917 File
    54918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54919 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    54920 out_of_bounds_list = True) 
    54921 File
    54922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54923 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    54924 subregion, step) 
    54925 File
    54926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54927 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    54928 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    54929 File
    54930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54931 packages/chimerax/map/volume.py", line 1243, in
    54932 matrix_indices_to_xyz_transform 
    54933 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    54934 File
    54935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54936 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    54937 r = self.subregion(step, subregion) 
    54938 File
    54939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54940 packages/chimerax/map/volume.py", line 1558, in subregion 
    54941 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54942 AttributeError: 'NoneType' object has no attribute 'size' 
    54943  
    54944 AttributeError: 'NoneType' object has no attribute 'size' 
    54945  
    54946 File
    54947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54948 packages/chimerax/map/volume.py", line 1558, in subregion 
    54949 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    54950  
    54951 See log for complete Python traceback. 
    54952  
    54953 Traceback (most recent call last): 
    54954 File
    54955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54956 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    54957 drew = self.draw_new_frame() 
    54958 File
    54959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54960 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    54961 surface.update_clip_caps(view) 
    54962 File
    54963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54964 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    54965 subdivision = settings.clipping_cap_subdivision) 
    54966 File
    54967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54968 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    54969 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    54970 File
    54971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54972 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    54973 cm.set_geometry(varray, narray, tarray) 
    54974 File
    54975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54976 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    54977 arv() 
    54978 File
    54979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54980 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    54981 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    54982 File
    54983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54984 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    54985 s.vertex_colors = self.vertex_colors(report_stats) 
    54986 File
    54987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54988 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    54989 values, outside = self.volume_values() 
    54990 File
    54991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54992 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    54993 return self.offset_values(v, n, tf) 
    54994 File
    54995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    54996 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    54997 values, outside = self.vertex_values(v, xf) 
    54998 File
    54999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55000 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55001 out_of_bounds_list = True) 
    55002 File
    55003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55004 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55005 subregion, step) 
    55006 File
    55007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55008 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55009 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55010 File
    55011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55012 packages/chimerax/map/volume.py", line 1243, in
    55013 matrix_indices_to_xyz_transform 
    55014 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55015 File
    55016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55017 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55018 r = self.subregion(step, subregion) 
    55019 File
    55020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55021 packages/chimerax/map/volume.py", line 1558, in subregion 
    55022 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55023 AttributeError: 'NoneType' object has no attribute 'size' 
    55024  
    55025 AttributeError: 'NoneType' object has no attribute 'size' 
    55026  
    55027 File
    55028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55029 packages/chimerax/map/volume.py", line 1558, in subregion 
    55030 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55031  
    55032 See log for complete Python traceback. 
    55033  
    55034 Traceback (most recent call last): 
    55035 File
    55036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55037 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55038 drew = self.draw_new_frame() 
    55039 File
    55040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55041 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55042 surface.update_clip_caps(view) 
    55043 File
    55044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55045 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55046 subdivision = settings.clipping_cap_subdivision) 
    55047 File
    55048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55049 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55050 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55051 File
    55052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55053 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55054 cm.set_geometry(varray, narray, tarray) 
    55055 File
    55056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55057 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55058 arv() 
    55059 File
    55060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55061 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55062 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55063 File
    55064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55065 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55066 s.vertex_colors = self.vertex_colors(report_stats) 
    55067 File
    55068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55069 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55070 values, outside = self.volume_values() 
    55071 File
    55072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55073 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55074 return self.offset_values(v, n, tf) 
    55075 File
    55076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55077 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55078 values, outside = self.vertex_values(v, xf) 
    55079 File
    55080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55081 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55082 out_of_bounds_list = True) 
    55083 File
    55084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55085 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55086 subregion, step) 
    55087 File
    55088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55089 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55090 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55091 File
    55092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55093 packages/chimerax/map/volume.py", line 1243, in
    55094 matrix_indices_to_xyz_transform 
    55095 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55096 File
    55097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55098 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55099 r = self.subregion(step, subregion) 
    55100 File
    55101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55102 packages/chimerax/map/volume.py", line 1558, in subregion 
    55103 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55104 AttributeError: 'NoneType' object has no attribute 'size' 
    55105  
    55106 AttributeError: 'NoneType' object has no attribute 'size' 
    55107  
    55108 File
    55109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55110 packages/chimerax/map/volume.py", line 1558, in subregion 
    55111 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55112  
    55113 See log for complete Python traceback. 
    55114  
    55115 Traceback (most recent call last): 
    55116 File
    55117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55118 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55119 drew = self.draw_new_frame() 
    55120 File
    55121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55122 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55123 surface.update_clip_caps(view) 
    55124 File
    55125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55126 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55127 subdivision = settings.clipping_cap_subdivision) 
    55128 File
    55129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55130 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55131 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55132 File
    55133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55134 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55135 cm.set_geometry(varray, narray, tarray) 
    55136 File
    55137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55138 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55139 arv() 
    55140 File
    55141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55142 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55143 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55144 File
    55145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55146 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55147 s.vertex_colors = self.vertex_colors(report_stats) 
    55148 File
    55149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55150 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55151 values, outside = self.volume_values() 
    55152 File
    55153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55154 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55155 return self.offset_values(v, n, tf) 
    55156 File
    55157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55158 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55159 values, outside = self.vertex_values(v, xf) 
    55160 File
    55161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55162 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55163 out_of_bounds_list = True) 
    55164 File
    55165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55166 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55167 subregion, step) 
    55168 File
    55169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55170 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55171 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55172 File
    55173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55174 packages/chimerax/map/volume.py", line 1243, in
    55175 matrix_indices_to_xyz_transform 
    55176 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55177 File
    55178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55179 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55180 r = self.subregion(step, subregion) 
    55181 File
    55182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55183 packages/chimerax/map/volume.py", line 1558, in subregion 
    55184 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55185 AttributeError: 'NoneType' object has no attribute 'size' 
    55186  
    55187 AttributeError: 'NoneType' object has no attribute 'size' 
    55188  
    55189 File
    55190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55191 packages/chimerax/map/volume.py", line 1558, in subregion 
    55192 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55193  
    55194 See log for complete Python traceback. 
    55195  
    55196 Traceback (most recent call last): 
    55197 File
    55198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55199 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55200 drew = self.draw_new_frame() 
    55201 File
    55202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55203 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55204 surface.update_clip_caps(view) 
    55205 File
    55206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55207 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55208 subdivision = settings.clipping_cap_subdivision) 
    55209 File
    55210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55211 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55212 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55213 File
    55214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55215 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55216 cm.set_geometry(varray, narray, tarray) 
    55217 File
    55218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55219 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55220 arv() 
    55221 File
    55222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55223 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55224 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55225 File
    55226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55227 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55228 s.vertex_colors = self.vertex_colors(report_stats) 
    55229 File
    55230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55231 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55232 values, outside = self.volume_values() 
    55233 File
    55234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55235 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55236 return self.offset_values(v, n, tf) 
    55237 File
    55238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55239 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55240 values, outside = self.vertex_values(v, xf) 
    55241 File
    55242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55243 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55244 out_of_bounds_list = True) 
    55245 File
    55246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55247 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55248 subregion, step) 
    55249 File
    55250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55251 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55252 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55253 File
    55254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55255 packages/chimerax/map/volume.py", line 1243, in
    55256 matrix_indices_to_xyz_transform 
    55257 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55258 File
    55259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55260 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55261 r = self.subregion(step, subregion) 
    55262 File
    55263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55264 packages/chimerax/map/volume.py", line 1558, in subregion 
    55265 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55266 AttributeError: 'NoneType' object has no attribute 'size' 
    55267  
    55268 AttributeError: 'NoneType' object has no attribute 'size' 
    55269  
    55270 File
    55271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55272 packages/chimerax/map/volume.py", line 1558, in subregion 
    55273 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55274  
    55275 See log for complete Python traceback. 
    55276  
    55277 Traceback (most recent call last): 
    55278 File
    55279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55280 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55281 drew = self.draw_new_frame() 
    55282 File
    55283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55284 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55285 surface.update_clip_caps(view) 
    55286 File
    55287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55288 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55289 subdivision = settings.clipping_cap_subdivision) 
    55290 File
    55291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55292 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55293 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55294 File
    55295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55296 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55297 cm.set_geometry(varray, narray, tarray) 
    55298 File
    55299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55300 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55301 arv() 
    55302 File
    55303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55304 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55305 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55306 File
    55307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55308 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55309 s.vertex_colors = self.vertex_colors(report_stats) 
    55310 File
    55311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55312 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55313 values, outside = self.volume_values() 
    55314 File
    55315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55316 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55317 return self.offset_values(v, n, tf) 
    55318 File
    55319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55320 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55321 values, outside = self.vertex_values(v, xf) 
    55322 File
    55323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55324 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55325 out_of_bounds_list = True) 
    55326 File
    55327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55328 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55329 subregion, step) 
    55330 File
    55331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55332 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55333 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55334 File
    55335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55336 packages/chimerax/map/volume.py", line 1243, in
    55337 matrix_indices_to_xyz_transform 
    55338 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55339 File
    55340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55341 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55342 r = self.subregion(step, subregion) 
    55343 File
    55344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55345 packages/chimerax/map/volume.py", line 1558, in subregion 
    55346 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55347 AttributeError: 'NoneType' object has no attribute 'size' 
    55348  
    55349 AttributeError: 'NoneType' object has no attribute 'size' 
    55350  
    55351 File
    55352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55353 packages/chimerax/map/volume.py", line 1558, in subregion 
    55354 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55355  
    55356 See log for complete Python traceback. 
    55357  
    55358 Traceback (most recent call last): 
    55359 File
    55360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55361 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55362 drew = self.draw_new_frame() 
    55363 File
    55364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55365 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55366 surface.update_clip_caps(view) 
    55367 File
    55368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55369 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55370 subdivision = settings.clipping_cap_subdivision) 
    55371 File
    55372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55373 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55374 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55375 File
    55376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55377 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55378 cm.set_geometry(varray, narray, tarray) 
    55379 File
    55380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55381 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55382 arv() 
    55383 File
    55384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55385 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55386 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55387 File
    55388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55389 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55390 s.vertex_colors = self.vertex_colors(report_stats) 
    55391 File
    55392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55393 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55394 values, outside = self.volume_values() 
    55395 File
    55396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55397 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55398 return self.offset_values(v, n, tf) 
    55399 File
    55400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55401 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55402 values, outside = self.vertex_values(v, xf) 
    55403 File
    55404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55405 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55406 out_of_bounds_list = True) 
    55407 File
    55408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55409 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55410 subregion, step) 
    55411 File
    55412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55413 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55414 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55415 File
    55416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55417 packages/chimerax/map/volume.py", line 1243, in
    55418 matrix_indices_to_xyz_transform 
    55419 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55420 File
    55421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55422 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55423 r = self.subregion(step, subregion) 
    55424 File
    55425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55426 packages/chimerax/map/volume.py", line 1558, in subregion 
    55427 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55428 AttributeError: 'NoneType' object has no attribute 'size' 
    55429  
    55430 AttributeError: 'NoneType' object has no attribute 'size' 
    55431  
    55432 File
    55433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55434 packages/chimerax/map/volume.py", line 1558, in subregion 
    55435 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55436  
    55437 See log for complete Python traceback. 
    55438  
    55439 Traceback (most recent call last): 
    55440 File
    55441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55442 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55443 drew = self.draw_new_frame() 
    55444 File
    55445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55446 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55447 surface.update_clip_caps(view) 
    55448 File
    55449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55450 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55451 subdivision = settings.clipping_cap_subdivision) 
    55452 File
    55453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55454 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55455 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55456 File
    55457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55458 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55459 cm.set_geometry(varray, narray, tarray) 
    55460 File
    55461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55462 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55463 arv() 
    55464 File
    55465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55466 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55467 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55468 File
    55469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55470 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55471 s.vertex_colors = self.vertex_colors(report_stats) 
    55472 File
    55473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55474 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55475 values, outside = self.volume_values() 
    55476 File
    55477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55478 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55479 return self.offset_values(v, n, tf) 
    55480 File
    55481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55482 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55483 values, outside = self.vertex_values(v, xf) 
    55484 File
    55485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55486 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55487 out_of_bounds_list = True) 
    55488 File
    55489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55490 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55491 subregion, step) 
    55492 File
    55493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55494 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55495 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55496 File
    55497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55498 packages/chimerax/map/volume.py", line 1243, in
    55499 matrix_indices_to_xyz_transform 
    55500 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55501 File
    55502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55503 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55504 r = self.subregion(step, subregion) 
    55505 File
    55506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55507 packages/chimerax/map/volume.py", line 1558, in subregion 
    55508 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55509 AttributeError: 'NoneType' object has no attribute 'size' 
    55510  
    55511 AttributeError: 'NoneType' object has no attribute 'size' 
    55512  
    55513 File
    55514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55515 packages/chimerax/map/volume.py", line 1558, in subregion 
    55516 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55517  
    55518 See log for complete Python traceback. 
    55519  
    55520 Traceback (most recent call last): 
    55521 File
    55522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55523 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55524 drew = self.draw_new_frame() 
    55525 File
    55526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55527 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55528 surface.update_clip_caps(view) 
    55529 File
    55530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55531 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55532 subdivision = settings.clipping_cap_subdivision) 
    55533 File
    55534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55535 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55536 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55537 File
    55538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55539 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55540 cm.set_geometry(varray, narray, tarray) 
    55541 File
    55542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55543 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55544 arv() 
    55545 File
    55546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55547 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55548 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55549 File
    55550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55551 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55552 s.vertex_colors = self.vertex_colors(report_stats) 
    55553 File
    55554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55555 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55556 values, outside = self.volume_values() 
    55557 File
    55558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55559 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55560 return self.offset_values(v, n, tf) 
    55561 File
    55562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55563 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55564 values, outside = self.vertex_values(v, xf) 
    55565 File
    55566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55567 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55568 out_of_bounds_list = True) 
    55569 File
    55570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55571 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55572 subregion, step) 
    55573 File
    55574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55575 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55576 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55577 File
    55578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55579 packages/chimerax/map/volume.py", line 1243, in
    55580 matrix_indices_to_xyz_transform 
    55581 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55582 File
    55583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55584 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55585 r = self.subregion(step, subregion) 
    55586 File
    55587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55588 packages/chimerax/map/volume.py", line 1558, in subregion 
    55589 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55590 AttributeError: 'NoneType' object has no attribute 'size' 
    55591  
    55592 AttributeError: 'NoneType' object has no attribute 'size' 
    55593  
    55594 File
    55595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55596 packages/chimerax/map/volume.py", line 1558, in subregion 
    55597 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55598  
    55599 See log for complete Python traceback. 
    55600  
    55601 Traceback (most recent call last): 
    55602 File
    55603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55604 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55605 drew = self.draw_new_frame() 
    55606 File
    55607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55608 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55609 surface.update_clip_caps(view) 
    55610 File
    55611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55612 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55613 subdivision = settings.clipping_cap_subdivision) 
    55614 File
    55615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55616 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55617 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55618 File
    55619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55620 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55621 cm.set_geometry(varray, narray, tarray) 
    55622 File
    55623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55624 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55625 arv() 
    55626 File
    55627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55628 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55629 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55630 File
    55631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55632 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55633 s.vertex_colors = self.vertex_colors(report_stats) 
    55634 File
    55635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55636 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55637 values, outside = self.volume_values() 
    55638 File
    55639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55640 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55641 return self.offset_values(v, n, tf) 
    55642 File
    55643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55644 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55645 values, outside = self.vertex_values(v, xf) 
    55646 File
    55647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55648 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55649 out_of_bounds_list = True) 
    55650 File
    55651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55652 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55653 subregion, step) 
    55654 File
    55655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55656 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55657 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55658 File
    55659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55660 packages/chimerax/map/volume.py", line 1243, in
    55661 matrix_indices_to_xyz_transform 
    55662 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55663 File
    55664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55665 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55666 r = self.subregion(step, subregion) 
    55667 File
    55668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55669 packages/chimerax/map/volume.py", line 1558, in subregion 
    55670 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55671 AttributeError: 'NoneType' object has no attribute 'size' 
    55672  
    55673 AttributeError: 'NoneType' object has no attribute 'size' 
    55674  
    55675 File
    55676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55677 packages/chimerax/map/volume.py", line 1558, in subregion 
    55678 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55679  
    55680 See log for complete Python traceback. 
    55681  
    55682 Traceback (most recent call last): 
    55683 File
    55684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55685 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55686 drew = self.draw_new_frame() 
    55687 File
    55688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55689 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55690 surface.update_clip_caps(view) 
    55691 File
    55692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55693 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55694 subdivision = settings.clipping_cap_subdivision) 
    55695 File
    55696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55697 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55698 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55699 File
    55700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55701 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55702 cm.set_geometry(varray, narray, tarray) 
    55703 File
    55704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55705 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55706 arv() 
    55707 File
    55708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55709 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55710 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55711 File
    55712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55713 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55714 s.vertex_colors = self.vertex_colors(report_stats) 
    55715 File
    55716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55717 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55718 values, outside = self.volume_values() 
    55719 File
    55720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55721 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55722 return self.offset_values(v, n, tf) 
    55723 File
    55724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55725 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55726 values, outside = self.vertex_values(v, xf) 
    55727 File
    55728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55729 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55730 out_of_bounds_list = True) 
    55731 File
    55732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55733 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55734 subregion, step) 
    55735 File
    55736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55737 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55738 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55739 File
    55740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55741 packages/chimerax/map/volume.py", line 1243, in
    55742 matrix_indices_to_xyz_transform 
    55743 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55744 File
    55745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55746 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55747 r = self.subregion(step, subregion) 
    55748 File
    55749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55750 packages/chimerax/map/volume.py", line 1558, in subregion 
    55751 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55752 AttributeError: 'NoneType' object has no attribute 'size' 
    55753  
    55754 AttributeError: 'NoneType' object has no attribute 'size' 
    55755  
    55756 File
    55757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55758 packages/chimerax/map/volume.py", line 1558, in subregion 
    55759 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55760  
    55761 See log for complete Python traceback. 
    55762  
    55763 Traceback (most recent call last): 
    55764 File
    55765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55766 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55767 drew = self.draw_new_frame() 
    55768 File
    55769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55770 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55771 surface.update_clip_caps(view) 
    55772 File
    55773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55774 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55775 subdivision = settings.clipping_cap_subdivision) 
    55776 File
    55777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55778 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55779 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55780 File
    55781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55782 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55783 cm.set_geometry(varray, narray, tarray) 
    55784 File
    55785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55786 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55787 arv() 
    55788 File
    55789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55790 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55791 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55792 File
    55793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55794 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55795 s.vertex_colors = self.vertex_colors(report_stats) 
    55796 File
    55797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55798 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55799 values, outside = self.volume_values() 
    55800 File
    55801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55802 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55803 return self.offset_values(v, n, tf) 
    55804 File
    55805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55806 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55807 values, outside = self.vertex_values(v, xf) 
    55808 File
    55809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55810 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55811 out_of_bounds_list = True) 
    55812 File
    55813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55814 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55815 subregion, step) 
    55816 File
    55817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55818 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55819 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55820 File
    55821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55822 packages/chimerax/map/volume.py", line 1243, in
    55823 matrix_indices_to_xyz_transform 
    55824 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55825 File
    55826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55827 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55828 r = self.subregion(step, subregion) 
    55829 File
    55830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55831 packages/chimerax/map/volume.py", line 1558, in subregion 
    55832 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55833 AttributeError: 'NoneType' object has no attribute 'size' 
    55834  
    55835 AttributeError: 'NoneType' object has no attribute 'size' 
    55836  
    55837 File
    55838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55839 packages/chimerax/map/volume.py", line 1558, in subregion 
    55840 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55841  
    55842 See log for complete Python traceback. 
    55843  
    55844 Traceback (most recent call last): 
    55845 File
    55846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55847 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55848 drew = self.draw_new_frame() 
    55849 File
    55850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55851 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55852 surface.update_clip_caps(view) 
    55853 File
    55854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55855 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55856 subdivision = settings.clipping_cap_subdivision) 
    55857 File
    55858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55859 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55860 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55861 File
    55862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55863 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55864 cm.set_geometry(varray, narray, tarray) 
    55865 File
    55866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55867 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55868 arv() 
    55869 File
    55870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55871 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55872 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55873 File
    55874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55875 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55876 s.vertex_colors = self.vertex_colors(report_stats) 
    55877 File
    55878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55879 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55880 values, outside = self.volume_values() 
    55881 File
    55882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55883 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55884 return self.offset_values(v, n, tf) 
    55885 File
    55886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55887 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55888 values, outside = self.vertex_values(v, xf) 
    55889 File
    55890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55891 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55892 out_of_bounds_list = True) 
    55893 File
    55894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55895 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55896 subregion, step) 
    55897 File
    55898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55899 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55900 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55901 File
    55902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55903 packages/chimerax/map/volume.py", line 1243, in
    55904 matrix_indices_to_xyz_transform 
    55905 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55906 File
    55907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55908 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55909 r = self.subregion(step, subregion) 
    55910 File
    55911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55912 packages/chimerax/map/volume.py", line 1558, in subregion 
    55913 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55914 AttributeError: 'NoneType' object has no attribute 'size' 
    55915  
    55916 AttributeError: 'NoneType' object has no attribute 'size' 
    55917  
    55918 File
    55919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55920 packages/chimerax/map/volume.py", line 1558, in subregion 
    55921 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55922  
    55923 See log for complete Python traceback. 
    55924  
    55925 Traceback (most recent call last): 
    55926 File
    55927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55928 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    55929 drew = self.draw_new_frame() 
    55930 File
    55931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55932 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    55933 surface.update_clip_caps(view) 
    55934 File
    55935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55936 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    55937 subdivision = settings.clipping_cap_subdivision) 
    55938 File
    55939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55940 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    55941 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    55942 File
    55943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55944 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    55945 cm.set_geometry(varray, narray, tarray) 
    55946 File
    55947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55948 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    55949 arv() 
    55950 File
    55951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55952 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    55953 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    55954 File
    55955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55956 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    55957 s.vertex_colors = self.vertex_colors(report_stats) 
    55958 File
    55959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55960 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    55961 values, outside = self.volume_values() 
    55962 File
    55963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55964 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    55965 return self.offset_values(v, n, tf) 
    55966 File
    55967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55968 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    55969 values, outside = self.vertex_values(v, xf) 
    55970 File
    55971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55972 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    55973 out_of_bounds_list = True) 
    55974 File
    55975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55976 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    55977 subregion, step) 
    55978 File
    55979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55980 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    55981 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    55982 File
    55983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55984 packages/chimerax/map/volume.py", line 1243, in
    55985 matrix_indices_to_xyz_transform 
    55986 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    55987 File
    55988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55989 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    55990 r = self.subregion(step, subregion) 
    55991 File
    55992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    55993 packages/chimerax/map/volume.py", line 1558, in subregion 
    55994 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    55995 AttributeError: 'NoneType' object has no attribute 'size' 
    55996  
    55997 AttributeError: 'NoneType' object has no attribute 'size' 
    55998  
    55999 File
    56000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56001 packages/chimerax/map/volume.py", line 1558, in subregion 
    56002 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56003  
    56004 See log for complete Python traceback. 
    56005  
    56006 Traceback (most recent call last): 
    56007 File
    56008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56009 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56010 drew = self.draw_new_frame() 
    56011 File
    56012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56013 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56014 surface.update_clip_caps(view) 
    56015 File
    56016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56017 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56018 subdivision = settings.clipping_cap_subdivision) 
    56019 File
    56020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56021 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56022 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56023 File
    56024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56025 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56026 cm.set_geometry(varray, narray, tarray) 
    56027 File
    56028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56029 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56030 arv() 
    56031 File
    56032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56033 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56034 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56035 File
    56036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56037 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56038 s.vertex_colors = self.vertex_colors(report_stats) 
    56039 File
    56040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56041 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56042 values, outside = self.volume_values() 
    56043 File
    56044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56045 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56046 return self.offset_values(v, n, tf) 
    56047 File
    56048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56049 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56050 values, outside = self.vertex_values(v, xf) 
    56051 File
    56052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56053 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56054 out_of_bounds_list = True) 
    56055 File
    56056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56057 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56058 subregion, step) 
    56059 File
    56060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56061 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56062 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56063 File
    56064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56065 packages/chimerax/map/volume.py", line 1243, in
    56066 matrix_indices_to_xyz_transform 
    56067 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56068 File
    56069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56070 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56071 r = self.subregion(step, subregion) 
    56072 File
    56073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56074 packages/chimerax/map/volume.py", line 1558, in subregion 
    56075 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56076 AttributeError: 'NoneType' object has no attribute 'size' 
    56077  
    56078 AttributeError: 'NoneType' object has no attribute 'size' 
    56079  
    56080 File
    56081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56082 packages/chimerax/map/volume.py", line 1558, in subregion 
    56083 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56084  
    56085 See log for complete Python traceback. 
    56086  
    56087 Traceback (most recent call last): 
    56088 File
    56089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56090 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56091 drew = self.draw_new_frame() 
    56092 File
    56093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56094 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56095 surface.update_clip_caps(view) 
    56096 File
    56097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56098 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56099 subdivision = settings.clipping_cap_subdivision) 
    56100 File
    56101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56102 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56103 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56104 File
    56105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56106 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56107 cm.set_geometry(varray, narray, tarray) 
    56108 File
    56109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56110 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56111 arv() 
    56112 File
    56113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56114 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56115 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56116 File
    56117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56118 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56119 s.vertex_colors = self.vertex_colors(report_stats) 
    56120 File
    56121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56122 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56123 values, outside = self.volume_values() 
    56124 File
    56125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56126 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56127 return self.offset_values(v, n, tf) 
    56128 File
    56129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56130 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56131 values, outside = self.vertex_values(v, xf) 
    56132 File
    56133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56134 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56135 out_of_bounds_list = True) 
    56136 File
    56137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56138 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56139 subregion, step) 
    56140 File
    56141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56142 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56143 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56144 File
    56145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56146 packages/chimerax/map/volume.py", line 1243, in
    56147 matrix_indices_to_xyz_transform 
    56148 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56149 File
    56150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56151 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56152 r = self.subregion(step, subregion) 
    56153 File
    56154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56155 packages/chimerax/map/volume.py", line 1558, in subregion 
    56156 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56157 AttributeError: 'NoneType' object has no attribute 'size' 
    56158  
    56159 AttributeError: 'NoneType' object has no attribute 'size' 
    56160  
    56161 File
    56162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56163 packages/chimerax/map/volume.py", line 1558, in subregion 
    56164 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56165  
    56166 See log for complete Python traceback. 
    56167  
    56168 Traceback (most recent call last): 
    56169 File
    56170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56171 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56172 drew = self.draw_new_frame() 
    56173 File
    56174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56175 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56176 surface.update_clip_caps(view) 
    56177 File
    56178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56179 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56180 subdivision = settings.clipping_cap_subdivision) 
    56181 File
    56182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56183 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56184 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56185 File
    56186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56187 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56188 cm.set_geometry(varray, narray, tarray) 
    56189 File
    56190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56191 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56192 arv() 
    56193 File
    56194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56195 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56196 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56197 File
    56198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56199 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56200 s.vertex_colors = self.vertex_colors(report_stats) 
    56201 File
    56202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56203 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56204 values, outside = self.volume_values() 
    56205 File
    56206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56207 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56208 return self.offset_values(v, n, tf) 
    56209 File
    56210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56211 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56212 values, outside = self.vertex_values(v, xf) 
    56213 File
    56214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56215 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56216 out_of_bounds_list = True) 
    56217 File
    56218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56219 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56220 subregion, step) 
    56221 File
    56222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56223 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56224 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56225 File
    56226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56227 packages/chimerax/map/volume.py", line 1243, in
    56228 matrix_indices_to_xyz_transform 
    56229 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56230 File
    56231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56232 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56233 r = self.subregion(step, subregion) 
    56234 File
    56235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56236 packages/chimerax/map/volume.py", line 1558, in subregion 
    56237 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56238 AttributeError: 'NoneType' object has no attribute 'size' 
    56239  
    56240 AttributeError: 'NoneType' object has no attribute 'size' 
    56241  
    56242 File
    56243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56244 packages/chimerax/map/volume.py", line 1558, in subregion 
    56245 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56246  
    56247 See log for complete Python traceback. 
    56248  
    56249 Traceback (most recent call last): 
    56250 File
    56251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56252 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56253 drew = self.draw_new_frame() 
    56254 File
    56255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56256 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56257 surface.update_clip_caps(view) 
    56258 File
    56259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56260 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56261 subdivision = settings.clipping_cap_subdivision) 
    56262 File
    56263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56264 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56265 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56266 File
    56267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56268 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56269 cm.set_geometry(varray, narray, tarray) 
    56270 File
    56271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56272 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56273 arv() 
    56274 File
    56275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56276 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56277 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56278 File
    56279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56280 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56281 s.vertex_colors = self.vertex_colors(report_stats) 
    56282 File
    56283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56284 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56285 values, outside = self.volume_values() 
    56286 File
    56287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56288 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56289 return self.offset_values(v, n, tf) 
    56290 File
    56291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56292 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56293 values, outside = self.vertex_values(v, xf) 
    56294 File
    56295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56296 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56297 out_of_bounds_list = True) 
    56298 File
    56299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56300 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56301 subregion, step) 
    56302 File
    56303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56304 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56305 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56306 File
    56307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56308 packages/chimerax/map/volume.py", line 1243, in
    56309 matrix_indices_to_xyz_transform 
    56310 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56311 File
    56312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56313 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56314 r = self.subregion(step, subregion) 
    56315 File
    56316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56317 packages/chimerax/map/volume.py", line 1558, in subregion 
    56318 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56319 AttributeError: 'NoneType' object has no attribute 'size' 
    56320  
    56321 AttributeError: 'NoneType' object has no attribute 'size' 
    56322  
    56323 File
    56324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56325 packages/chimerax/map/volume.py", line 1558, in subregion 
    56326 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56327  
    56328 See log for complete Python traceback. 
    56329  
    56330 Traceback (most recent call last): 
    56331 File
    56332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56333 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56334 drew = self.draw_new_frame() 
    56335 File
    56336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56337 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56338 surface.update_clip_caps(view) 
    56339 File
    56340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56341 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56342 subdivision = settings.clipping_cap_subdivision) 
    56343 File
    56344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56345 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56346 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56347 File
    56348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56349 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56350 cm.set_geometry(varray, narray, tarray) 
    56351 File
    56352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56353 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56354 arv() 
    56355 File
    56356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56357 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56358 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56359 File
    56360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56361 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56362 s.vertex_colors = self.vertex_colors(report_stats) 
    56363 File
    56364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56365 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56366 values, outside = self.volume_values() 
    56367 File
    56368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56369 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56370 return self.offset_values(v, n, tf) 
    56371 File
    56372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56373 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56374 values, outside = self.vertex_values(v, xf) 
    56375 File
    56376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56377 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56378 out_of_bounds_list = True) 
    56379 File
    56380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56381 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56382 subregion, step) 
    56383 File
    56384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56385 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56386 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56387 File
    56388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56389 packages/chimerax/map/volume.py", line 1243, in
    56390 matrix_indices_to_xyz_transform 
    56391 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56392 File
    56393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56394 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56395 r = self.subregion(step, subregion) 
    56396 File
    56397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56398 packages/chimerax/map/volume.py", line 1558, in subregion 
    56399 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56400 AttributeError: 'NoneType' object has no attribute 'size' 
    56401  
    56402 AttributeError: 'NoneType' object has no attribute 'size' 
    56403  
    56404 File
    56405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56406 packages/chimerax/map/volume.py", line 1558, in subregion 
    56407 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56408  
    56409 See log for complete Python traceback. 
    56410  
    56411 Traceback (most recent call last): 
    56412 File
    56413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56414 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56415 drew = self.draw_new_frame() 
    56416 File
    56417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56418 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56419 surface.update_clip_caps(view) 
    56420 File
    56421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56422 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56423 subdivision = settings.clipping_cap_subdivision) 
    56424 File
    56425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56426 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56427 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56428 File
    56429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56430 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56431 cm.set_geometry(varray, narray, tarray) 
    56432 File
    56433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56434 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56435 arv() 
    56436 File
    56437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56438 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56439 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56440 File
    56441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56442 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56443 s.vertex_colors = self.vertex_colors(report_stats) 
    56444 File
    56445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56446 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56447 values, outside = self.volume_values() 
    56448 File
    56449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56450 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56451 return self.offset_values(v, n, tf) 
    56452 File
    56453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56454 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56455 values, outside = self.vertex_values(v, xf) 
    56456 File
    56457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56458 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56459 out_of_bounds_list = True) 
    56460 File
    56461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56462 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56463 subregion, step) 
    56464 File
    56465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56466 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56467 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56468 File
    56469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56470 packages/chimerax/map/volume.py", line 1243, in
    56471 matrix_indices_to_xyz_transform 
    56472 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56473 File
    56474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56475 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56476 r = self.subregion(step, subregion) 
    56477 File
    56478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56479 packages/chimerax/map/volume.py", line 1558, in subregion 
    56480 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56481 AttributeError: 'NoneType' object has no attribute 'size' 
    56482  
    56483 AttributeError: 'NoneType' object has no attribute 'size' 
    56484  
    56485 File
    56486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56487 packages/chimerax/map/volume.py", line 1558, in subregion 
    56488 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56489  
    56490 See log for complete Python traceback. 
    56491  
    56492 Traceback (most recent call last): 
    56493 File
    56494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56495 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56496 drew = self.draw_new_frame() 
    56497 File
    56498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56499 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56500 surface.update_clip_caps(view) 
    56501 File
    56502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56503 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56504 subdivision = settings.clipping_cap_subdivision) 
    56505 File
    56506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56507 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56508 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56509 File
    56510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56511 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56512 cm.set_geometry(varray, narray, tarray) 
    56513 File
    56514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56515 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56516 arv() 
    56517 File
    56518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56519 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56520 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56521 File
    56522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56523 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56524 s.vertex_colors = self.vertex_colors(report_stats) 
    56525 File
    56526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56527 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56528 values, outside = self.volume_values() 
    56529 File
    56530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56531 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56532 return self.offset_values(v, n, tf) 
    56533 File
    56534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56535 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56536 values, outside = self.vertex_values(v, xf) 
    56537 File
    56538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56539 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56540 out_of_bounds_list = True) 
    56541 File
    56542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56543 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56544 subregion, step) 
    56545 File
    56546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56547 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56548 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56549 File
    56550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56551 packages/chimerax/map/volume.py", line 1243, in
    56552 matrix_indices_to_xyz_transform 
    56553 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56554 File
    56555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56556 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56557 r = self.subregion(step, subregion) 
    56558 File
    56559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56560 packages/chimerax/map/volume.py", line 1558, in subregion 
    56561 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56562 AttributeError: 'NoneType' object has no attribute 'size' 
    56563  
    56564 AttributeError: 'NoneType' object has no attribute 'size' 
    56565  
    56566 File
    56567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56568 packages/chimerax/map/volume.py", line 1558, in subregion 
    56569 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56570  
    56571 See log for complete Python traceback. 
    56572  
    56573 Traceback (most recent call last): 
    56574 File
    56575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56576 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56577 drew = self.draw_new_frame() 
    56578 File
    56579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56580 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56581 surface.update_clip_caps(view) 
    56582 File
    56583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56584 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56585 subdivision = settings.clipping_cap_subdivision) 
    56586 File
    56587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56588 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56589 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56590 File
    56591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56592 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56593 cm.set_geometry(varray, narray, tarray) 
    56594 File
    56595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56596 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56597 arv() 
    56598 File
    56599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56600 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56601 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56602 File
    56603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56604 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56605 s.vertex_colors = self.vertex_colors(report_stats) 
    56606 File
    56607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56608 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56609 values, outside = self.volume_values() 
    56610 File
    56611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56612 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56613 return self.offset_values(v, n, tf) 
    56614 File
    56615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56616 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56617 values, outside = self.vertex_values(v, xf) 
    56618 File
    56619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56620 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56621 out_of_bounds_list = True) 
    56622 File
    56623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56624 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56625 subregion, step) 
    56626 File
    56627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56628 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56629 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56630 File
    56631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56632 packages/chimerax/map/volume.py", line 1243, in
    56633 matrix_indices_to_xyz_transform 
    56634 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56635 File
    56636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56637 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56638 r = self.subregion(step, subregion) 
    56639 File
    56640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56641 packages/chimerax/map/volume.py", line 1558, in subregion 
    56642 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56643 AttributeError: 'NoneType' object has no attribute 'size' 
    56644  
    56645 AttributeError: 'NoneType' object has no attribute 'size' 
    56646  
    56647 File
    56648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56649 packages/chimerax/map/volume.py", line 1558, in subregion 
    56650 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56651  
    56652 See log for complete Python traceback. 
    56653  
    56654 Traceback (most recent call last): 
    56655 File
    56656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56657 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56658 drew = self.draw_new_frame() 
    56659 File
    56660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56661 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56662 surface.update_clip_caps(view) 
    56663 File
    56664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56665 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56666 subdivision = settings.clipping_cap_subdivision) 
    56667 File
    56668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56669 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56670 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56671 File
    56672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56673 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56674 cm.set_geometry(varray, narray, tarray) 
    56675 File
    56676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56677 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56678 arv() 
    56679 File
    56680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56681 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56682 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56683 File
    56684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56685 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56686 s.vertex_colors = self.vertex_colors(report_stats) 
    56687 File
    56688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56689 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56690 values, outside = self.volume_values() 
    56691 File
    56692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56693 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56694 return self.offset_values(v, n, tf) 
    56695 File
    56696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56697 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56698 values, outside = self.vertex_values(v, xf) 
    56699 File
    56700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56701 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56702 out_of_bounds_list = True) 
    56703 File
    56704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56705 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56706 subregion, step) 
    56707 File
    56708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56709 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56710 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56711 File
    56712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56713 packages/chimerax/map/volume.py", line 1243, in
    56714 matrix_indices_to_xyz_transform 
    56715 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56716 File
    56717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56718 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56719 r = self.subregion(step, subregion) 
    56720 File
    56721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56722 packages/chimerax/map/volume.py", line 1558, in subregion 
    56723 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56724 AttributeError: 'NoneType' object has no attribute 'size' 
    56725  
    56726 AttributeError: 'NoneType' object has no attribute 'size' 
    56727  
    56728 File
    56729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56730 packages/chimerax/map/volume.py", line 1558, in subregion 
    56731 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56732  
    56733 See log for complete Python traceback. 
    56734  
    56735 Traceback (most recent call last): 
    56736 File
    56737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56738 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56739 drew = self.draw_new_frame() 
    56740 File
    56741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56742 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56743 surface.update_clip_caps(view) 
    56744 File
    56745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56746 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56747 subdivision = settings.clipping_cap_subdivision) 
    56748 File
    56749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56750 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56751 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56752 File
    56753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56754 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56755 cm.set_geometry(varray, narray, tarray) 
    56756 File
    56757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56758 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56759 arv() 
    56760 File
    56761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56762 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56763 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56764 File
    56765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56766 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56767 s.vertex_colors = self.vertex_colors(report_stats) 
    56768 File
    56769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56770 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56771 values, outside = self.volume_values() 
    56772 File
    56773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56774 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56775 return self.offset_values(v, n, tf) 
    56776 File
    56777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56778 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56779 values, outside = self.vertex_values(v, xf) 
    56780 File
    56781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56782 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56783 out_of_bounds_list = True) 
    56784 File
    56785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56786 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56787 subregion, step) 
    56788 File
    56789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56790 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56791 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56792 File
    56793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56794 packages/chimerax/map/volume.py", line 1243, in
    56795 matrix_indices_to_xyz_transform 
    56796 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56797 File
    56798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56799 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56800 r = self.subregion(step, subregion) 
    56801 File
    56802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56803 packages/chimerax/map/volume.py", line 1558, in subregion 
    56804 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56805 AttributeError: 'NoneType' object has no attribute 'size' 
    56806  
    56807 AttributeError: 'NoneType' object has no attribute 'size' 
    56808  
    56809 File
    56810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56811 packages/chimerax/map/volume.py", line 1558, in subregion 
    56812 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56813  
    56814 See log for complete Python traceback. 
    56815  
    56816 Traceback (most recent call last): 
    56817 File
    56818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56819 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56820 drew = self.draw_new_frame() 
    56821 File
    56822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56823 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56824 surface.update_clip_caps(view) 
    56825 File
    56826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56827 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56828 subdivision = settings.clipping_cap_subdivision) 
    56829 File
    56830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56831 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56832 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56833 File
    56834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56835 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56836 cm.set_geometry(varray, narray, tarray) 
    56837 File
    56838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56839 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56840 arv() 
    56841 File
    56842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56843 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56844 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56845 File
    56846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56847 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56848 s.vertex_colors = self.vertex_colors(report_stats) 
    56849 File
    56850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56851 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56852 values, outside = self.volume_values() 
    56853 File
    56854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56855 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56856 return self.offset_values(v, n, tf) 
    56857 File
    56858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56859 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56860 values, outside = self.vertex_values(v, xf) 
    56861 File
    56862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56863 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56864 out_of_bounds_list = True) 
    56865 File
    56866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56867 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56868 subregion, step) 
    56869 File
    56870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56871 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56872 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56873 File
    56874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56875 packages/chimerax/map/volume.py", line 1243, in
    56876 matrix_indices_to_xyz_transform 
    56877 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56878 File
    56879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56880 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56881 r = self.subregion(step, subregion) 
    56882 File
    56883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56884 packages/chimerax/map/volume.py", line 1558, in subregion 
    56885 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56886 AttributeError: 'NoneType' object has no attribute 'size' 
    56887  
    56888 AttributeError: 'NoneType' object has no attribute 'size' 
    56889  
    56890 File
    56891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56892 packages/chimerax/map/volume.py", line 1558, in subregion 
    56893 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56894  
    56895 See log for complete Python traceback. 
    56896  
    56897 Traceback (most recent call last): 
    56898 File
    56899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56900 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56901 drew = self.draw_new_frame() 
    56902 File
    56903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56904 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56905 surface.update_clip_caps(view) 
    56906 File
    56907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56908 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56909 subdivision = settings.clipping_cap_subdivision) 
    56910 File
    56911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56912 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56913 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56914 File
    56915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56916 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56917 cm.set_geometry(varray, narray, tarray) 
    56918 File
    56919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56920 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    56921 arv() 
    56922 File
    56923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56924 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    56925 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    56926 File
    56927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56928 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    56929 s.vertex_colors = self.vertex_colors(report_stats) 
    56930 File
    56931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56932 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    56933 values, outside = self.volume_values() 
    56934 File
    56935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56936 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    56937 return self.offset_values(v, n, tf) 
    56938 File
    56939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56940 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    56941 values, outside = self.vertex_values(v, xf) 
    56942 File
    56943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56944 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    56945 out_of_bounds_list = True) 
    56946 File
    56947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56948 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    56949 subregion, step) 
    56950 File
    56951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56952 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    56953 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    56954 File
    56955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56956 packages/chimerax/map/volume.py", line 1243, in
    56957 matrix_indices_to_xyz_transform 
    56958 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    56959 File
    56960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56961 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    56962 r = self.subregion(step, subregion) 
    56963 File
    56964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56965 packages/chimerax/map/volume.py", line 1558, in subregion 
    56966 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56967 AttributeError: 'NoneType' object has no attribute 'size' 
    56968  
    56969 AttributeError: 'NoneType' object has no attribute 'size' 
    56970  
    56971 File
    56972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56973 packages/chimerax/map/volume.py", line 1558, in subregion 
    56974 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    56975  
    56976 See log for complete Python traceback. 
    56977  
    56978 Traceback (most recent call last): 
    56979 File
    56980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56981 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    56982 drew = self.draw_new_frame() 
    56983 File
    56984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56985 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    56986 surface.update_clip_caps(view) 
    56987 File
    56988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56989 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    56990 subdivision = settings.clipping_cap_subdivision) 
    56991 File
    56992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56993 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    56994 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    56995 File
    56996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    56997 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    56998 cm.set_geometry(varray, narray, tarray) 
    56999 File
    57000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57001 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57002 arv() 
    57003 File
    57004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57005 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57006 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57007 File
    57008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57009 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57010 s.vertex_colors = self.vertex_colors(report_stats) 
    57011 File
    57012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57013 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57014 values, outside = self.volume_values() 
    57015 File
    57016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57017 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57018 return self.offset_values(v, n, tf) 
    57019 File
    57020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57021 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57022 values, outside = self.vertex_values(v, xf) 
    57023 File
    57024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57025 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57026 out_of_bounds_list = True) 
    57027 File
    57028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57029 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57030 subregion, step) 
    57031 File
    57032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57033 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57034 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57035 File
    57036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57037 packages/chimerax/map/volume.py", line 1243, in
    57038 matrix_indices_to_xyz_transform 
    57039 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57040 File
    57041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57042 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57043 r = self.subregion(step, subregion) 
    57044 File
    57045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57046 packages/chimerax/map/volume.py", line 1558, in subregion 
    57047 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57048 AttributeError: 'NoneType' object has no attribute 'size' 
    57049  
    57050 AttributeError: 'NoneType' object has no attribute 'size' 
    57051  
    57052 File
    57053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57054 packages/chimerax/map/volume.py", line 1558, in subregion 
    57055 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57056  
    57057 See log for complete Python traceback. 
    57058  
    57059 Traceback (most recent call last): 
    57060 File
    57061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57062 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57063 drew = self.draw_new_frame() 
    57064 File
    57065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57066 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57067 surface.update_clip_caps(view) 
    57068 File
    57069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57070 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57071 subdivision = settings.clipping_cap_subdivision) 
    57072 File
    57073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57074 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57075 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57076 File
    57077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57078 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57079 cm.set_geometry(varray, narray, tarray) 
    57080 File
    57081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57082 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57083 arv() 
    57084 File
    57085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57086 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57087 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57088 File
    57089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57090 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57091 s.vertex_colors = self.vertex_colors(report_stats) 
    57092 File
    57093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57094 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57095 values, outside = self.volume_values() 
    57096 File
    57097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57098 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57099 return self.offset_values(v, n, tf) 
    57100 File
    57101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57102 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57103 values, outside = self.vertex_values(v, xf) 
    57104 File
    57105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57106 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57107 out_of_bounds_list = True) 
    57108 File
    57109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57110 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57111 subregion, step) 
    57112 File
    57113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57114 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57115 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57116 File
    57117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57118 packages/chimerax/map/volume.py", line 1243, in
    57119 matrix_indices_to_xyz_transform 
    57120 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57121 File
    57122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57123 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57124 r = self.subregion(step, subregion) 
    57125 File
    57126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57127 packages/chimerax/map/volume.py", line 1558, in subregion 
    57128 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57129 AttributeError: 'NoneType' object has no attribute 'size' 
    57130  
    57131 AttributeError: 'NoneType' object has no attribute 'size' 
    57132  
    57133 File
    57134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57135 packages/chimerax/map/volume.py", line 1558, in subregion 
    57136 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57137  
    57138 See log for complete Python traceback. 
    57139  
    57140 Traceback (most recent call last): 
    57141 File
    57142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57143 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57144 drew = self.draw_new_frame() 
    57145 File
    57146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57147 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57148 surface.update_clip_caps(view) 
    57149 File
    57150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57151 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57152 subdivision = settings.clipping_cap_subdivision) 
    57153 File
    57154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57155 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57156 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57157 File
    57158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57159 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57160 cm.set_geometry(varray, narray, tarray) 
    57161 File
    57162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57163 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57164 arv() 
    57165 File
    57166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57167 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57168 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57169 File
    57170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57171 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57172 s.vertex_colors = self.vertex_colors(report_stats) 
    57173 File
    57174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57175 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57176 values, outside = self.volume_values() 
    57177 File
    57178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57179 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57180 return self.offset_values(v, n, tf) 
    57181 File
    57182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57183 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57184 values, outside = self.vertex_values(v, xf) 
    57185 File
    57186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57187 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57188 out_of_bounds_list = True) 
    57189 File
    57190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57191 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57192 subregion, step) 
    57193 File
    57194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57195 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57196 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57197 File
    57198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57199 packages/chimerax/map/volume.py", line 1243, in
    57200 matrix_indices_to_xyz_transform 
    57201 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57202 File
    57203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57204 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57205 r = self.subregion(step, subregion) 
    57206 File
    57207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57208 packages/chimerax/map/volume.py", line 1558, in subregion 
    57209 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57210 AttributeError: 'NoneType' object has no attribute 'size' 
    57211  
    57212 AttributeError: 'NoneType' object has no attribute 'size' 
    57213  
    57214 File
    57215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57216 packages/chimerax/map/volume.py", line 1558, in subregion 
    57217 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57218  
    57219 See log for complete Python traceback. 
    57220  
    57221 Traceback (most recent call last): 
    57222 File
    57223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57224 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57225 drew = self.draw_new_frame() 
    57226 File
    57227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57228 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57229 surface.update_clip_caps(view) 
    57230 File
    57231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57232 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57233 subdivision = settings.clipping_cap_subdivision) 
    57234 File
    57235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57236 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57237 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57238 File
    57239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57240 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57241 cm.set_geometry(varray, narray, tarray) 
    57242 File
    57243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57244 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57245 arv() 
    57246 File
    57247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57248 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57249 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57250 File
    57251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57252 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57253 s.vertex_colors = self.vertex_colors(report_stats) 
    57254 File
    57255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57256 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57257 values, outside = self.volume_values() 
    57258 File
    57259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57260 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57261 return self.offset_values(v, n, tf) 
    57262 File
    57263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57264 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57265 values, outside = self.vertex_values(v, xf) 
    57266 File
    57267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57268 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57269 out_of_bounds_list = True) 
    57270 File
    57271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57272 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57273 subregion, step) 
    57274 File
    57275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57276 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57277 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57278 File
    57279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57280 packages/chimerax/map/volume.py", line 1243, in
    57281 matrix_indices_to_xyz_transform 
    57282 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57283 File
    57284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57285 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57286 r = self.subregion(step, subregion) 
    57287 File
    57288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57289 packages/chimerax/map/volume.py", line 1558, in subregion 
    57290 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57291 AttributeError: 'NoneType' object has no attribute 'size' 
    57292  
    57293 AttributeError: 'NoneType' object has no attribute 'size' 
    57294  
    57295 File
    57296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57297 packages/chimerax/map/volume.py", line 1558, in subregion 
    57298 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57299  
    57300 See log for complete Python traceback. 
    57301  
    57302 Traceback (most recent call last): 
    57303 File
    57304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57305 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57306 drew = self.draw_new_frame() 
    57307 File
    57308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57309 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57310 surface.update_clip_caps(view) 
    57311 File
    57312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57313 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57314 subdivision = settings.clipping_cap_subdivision) 
    57315 File
    57316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57317 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57318 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57319 File
    57320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57321 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57322 cm.set_geometry(varray, narray, tarray) 
    57323 File
    57324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57325 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57326 arv() 
    57327 File
    57328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57329 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57330 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57331 File
    57332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57333 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57334 s.vertex_colors = self.vertex_colors(report_stats) 
    57335 File
    57336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57337 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57338 values, outside = self.volume_values() 
    57339 File
    57340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57341 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57342 return self.offset_values(v, n, tf) 
    57343 File
    57344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57345 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57346 values, outside = self.vertex_values(v, xf) 
    57347 File
    57348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57349 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57350 out_of_bounds_list = True) 
    57351 File
    57352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57353 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57354 subregion, step) 
    57355 File
    57356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57357 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57358 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57359 File
    57360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57361 packages/chimerax/map/volume.py", line 1243, in
    57362 matrix_indices_to_xyz_transform 
    57363 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57364 File
    57365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57366 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57367 r = self.subregion(step, subregion) 
    57368 File
    57369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57370 packages/chimerax/map/volume.py", line 1558, in subregion 
    57371 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57372 AttributeError: 'NoneType' object has no attribute 'size' 
    57373  
    57374 AttributeError: 'NoneType' object has no attribute 'size' 
    57375  
    57376 File
    57377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57378 packages/chimerax/map/volume.py", line 1558, in subregion 
    57379 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57380  
    57381 See log for complete Python traceback. 
    57382  
    57383 Traceback (most recent call last): 
    57384 File
    57385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57386 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57387 drew = self.draw_new_frame() 
    57388 File
    57389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57390 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57391 surface.update_clip_caps(view) 
    57392 File
    57393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57394 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57395 subdivision = settings.clipping_cap_subdivision) 
    57396 File
    57397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57398 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57399 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57400 File
    57401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57402 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57403 cm.set_geometry(varray, narray, tarray) 
    57404 File
    57405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57406 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57407 arv() 
    57408 File
    57409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57410 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57411 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57412 File
    57413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57414 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57415 s.vertex_colors = self.vertex_colors(report_stats) 
    57416 File
    57417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57418 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57419 values, outside = self.volume_values() 
    57420 File
    57421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57422 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57423 return self.offset_values(v, n, tf) 
    57424 File
    57425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57426 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57427 values, outside = self.vertex_values(v, xf) 
    57428 File
    57429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57430 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57431 out_of_bounds_list = True) 
    57432 File
    57433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57434 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57435 subregion, step) 
    57436 File
    57437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57438 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57439 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57440 File
    57441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57442 packages/chimerax/map/volume.py", line 1243, in
    57443 matrix_indices_to_xyz_transform 
    57444 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57445 File
    57446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57447 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57448 r = self.subregion(step, subregion) 
    57449 File
    57450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57451 packages/chimerax/map/volume.py", line 1558, in subregion 
    57452 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57453 AttributeError: 'NoneType' object has no attribute 'size' 
    57454  
    57455 AttributeError: 'NoneType' object has no attribute 'size' 
    57456  
    57457 File
    57458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57459 packages/chimerax/map/volume.py", line 1558, in subregion 
    57460 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57461  
    57462 See log for complete Python traceback. 
    57463  
    57464 Traceback (most recent call last): 
    57465 File
    57466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57467 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57468 drew = self.draw_new_frame() 
    57469 File
    57470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57471 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57472 surface.update_clip_caps(view) 
    57473 File
    57474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57475 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57476 subdivision = settings.clipping_cap_subdivision) 
    57477 File
    57478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57479 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57480 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57481 File
    57482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57483 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57484 cm.set_geometry(varray, narray, tarray) 
    57485 File
    57486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57487 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57488 arv() 
    57489 File
    57490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57491 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57492 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57493 File
    57494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57495 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57496 s.vertex_colors = self.vertex_colors(report_stats) 
    57497 File
    57498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57499 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57500 values, outside = self.volume_values() 
    57501 File
    57502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57503 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57504 return self.offset_values(v, n, tf) 
    57505 File
    57506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57507 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57508 values, outside = self.vertex_values(v, xf) 
    57509 File
    57510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57511 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57512 out_of_bounds_list = True) 
    57513 File
    57514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57515 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57516 subregion, step) 
    57517 File
    57518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57519 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57520 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57521 File
    57522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57523 packages/chimerax/map/volume.py", line 1243, in
    57524 matrix_indices_to_xyz_transform 
    57525 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57526 File
    57527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57528 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57529 r = self.subregion(step, subregion) 
    57530 File
    57531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57532 packages/chimerax/map/volume.py", line 1558, in subregion 
    57533 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57534 AttributeError: 'NoneType' object has no attribute 'size' 
    57535  
    57536 AttributeError: 'NoneType' object has no attribute 'size' 
    57537  
    57538 File
    57539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57540 packages/chimerax/map/volume.py", line 1558, in subregion 
    57541 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57542  
    57543 See log for complete Python traceback. 
    57544  
    57545 Traceback (most recent call last): 
    57546 File
    57547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57548 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57549 drew = self.draw_new_frame() 
    57550 File
    57551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57552 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57553 surface.update_clip_caps(view) 
    57554 File
    57555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57556 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57557 subdivision = settings.clipping_cap_subdivision) 
    57558 File
    57559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57560 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57561 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57562 File
    57563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57564 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57565 cm.set_geometry(varray, narray, tarray) 
    57566 File
    57567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57568 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57569 arv() 
    57570 File
    57571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57572 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57573 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57574 File
    57575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57576 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57577 s.vertex_colors = self.vertex_colors(report_stats) 
    57578 File
    57579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57580 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57581 values, outside = self.volume_values() 
    57582 File
    57583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57584 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57585 return self.offset_values(v, n, tf) 
    57586 File
    57587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57588 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57589 values, outside = self.vertex_values(v, xf) 
    57590 File
    57591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57592 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57593 out_of_bounds_list = True) 
    57594 File
    57595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57596 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57597 subregion, step) 
    57598 File
    57599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57600 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57601 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57602 File
    57603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57604 packages/chimerax/map/volume.py", line 1243, in
    57605 matrix_indices_to_xyz_transform 
    57606 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57607 File
    57608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57609 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57610 r = self.subregion(step, subregion) 
    57611 File
    57612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57613 packages/chimerax/map/volume.py", line 1558, in subregion 
    57614 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57615 AttributeError: 'NoneType' object has no attribute 'size' 
    57616  
    57617 AttributeError: 'NoneType' object has no attribute 'size' 
    57618  
    57619 File
    57620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57621 packages/chimerax/map/volume.py", line 1558, in subregion 
    57622 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57623  
    57624 See log for complete Python traceback. 
    57625  
    57626 Traceback (most recent call last): 
    57627 File
    57628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57629 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57630 drew = self.draw_new_frame() 
    57631 File
    57632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57633 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57634 surface.update_clip_caps(view) 
    57635 File
    57636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57637 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57638 subdivision = settings.clipping_cap_subdivision) 
    57639 File
    57640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57641 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57642 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57643 File
    57644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57645 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57646 cm.set_geometry(varray, narray, tarray) 
    57647 File
    57648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57649 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57650 arv() 
    57651 File
    57652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57653 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57654 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57655 File
    57656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57657 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57658 s.vertex_colors = self.vertex_colors(report_stats) 
    57659 File
    57660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57661 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57662 values, outside = self.volume_values() 
    57663 File
    57664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57665 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57666 return self.offset_values(v, n, tf) 
    57667 File
    57668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57669 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57670 values, outside = self.vertex_values(v, xf) 
    57671 File
    57672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57673 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57674 out_of_bounds_list = True) 
    57675 File
    57676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57677 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57678 subregion, step) 
    57679 File
    57680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57681 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57682 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57683 File
    57684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57685 packages/chimerax/map/volume.py", line 1243, in
    57686 matrix_indices_to_xyz_transform 
    57687 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57688 File
    57689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57690 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57691 r = self.subregion(step, subregion) 
    57692 File
    57693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57694 packages/chimerax/map/volume.py", line 1558, in subregion 
    57695 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57696 AttributeError: 'NoneType' object has no attribute 'size' 
    57697  
    57698 AttributeError: 'NoneType' object has no attribute 'size' 
    57699  
    57700 File
    57701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57702 packages/chimerax/map/volume.py", line 1558, in subregion 
    57703 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57704  
    57705 See log for complete Python traceback. 
    57706  
    57707 Traceback (most recent call last): 
    57708 File
    57709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57710 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57711 drew = self.draw_new_frame() 
    57712 File
    57713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57714 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57715 surface.update_clip_caps(view) 
    57716 File
    57717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57718 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57719 subdivision = settings.clipping_cap_subdivision) 
    57720 File
    57721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57722 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57723 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57724 File
    57725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57726 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57727 cm.set_geometry(varray, narray, tarray) 
    57728 File
    57729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57730 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57731 arv() 
    57732 File
    57733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57734 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57735 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57736 File
    57737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57738 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57739 s.vertex_colors = self.vertex_colors(report_stats) 
    57740 File
    57741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57742 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57743 values, outside = self.volume_values() 
    57744 File
    57745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57746 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57747 return self.offset_values(v, n, tf) 
    57748 File
    57749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57750 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57751 values, outside = self.vertex_values(v, xf) 
    57752 File
    57753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57754 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57755 out_of_bounds_list = True) 
    57756 File
    57757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57758 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57759 subregion, step) 
    57760 File
    57761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57762 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57763 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57764 File
    57765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57766 packages/chimerax/map/volume.py", line 1243, in
    57767 matrix_indices_to_xyz_transform 
    57768 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57769 File
    57770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57771 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57772 r = self.subregion(step, subregion) 
    57773 File
    57774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57775 packages/chimerax/map/volume.py", line 1558, in subregion 
    57776 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57777 AttributeError: 'NoneType' object has no attribute 'size' 
    57778  
    57779 AttributeError: 'NoneType' object has no attribute 'size' 
    57780  
    57781 File
    57782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57783 packages/chimerax/map/volume.py", line 1558, in subregion 
    57784 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57785  
    57786 See log for complete Python traceback. 
    57787  
    57788 Traceback (most recent call last): 
    57789 File
    57790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57791 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57792 drew = self.draw_new_frame() 
    57793 File
    57794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57795 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57796 surface.update_clip_caps(view) 
    57797 File
    57798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57799 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57800 subdivision = settings.clipping_cap_subdivision) 
    57801 File
    57802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57803 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57804 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57805 File
    57806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57807 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57808 cm.set_geometry(varray, narray, tarray) 
    57809 File
    57810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57811 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57812 arv() 
    57813 File
    57814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57815 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57816 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57817 File
    57818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57819 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57820 s.vertex_colors = self.vertex_colors(report_stats) 
    57821 File
    57822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57823 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57824 values, outside = self.volume_values() 
    57825 File
    57826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57827 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57828 return self.offset_values(v, n, tf) 
    57829 File
    57830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57831 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57832 values, outside = self.vertex_values(v, xf) 
    57833 File
    57834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57835 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57836 out_of_bounds_list = True) 
    57837 File
    57838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57839 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57840 subregion, step) 
    57841 File
    57842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57843 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57844 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57845 File
    57846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57847 packages/chimerax/map/volume.py", line 1243, in
    57848 matrix_indices_to_xyz_transform 
    57849 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57850 File
    57851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57852 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57853 r = self.subregion(step, subregion) 
    57854 File
    57855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57856 packages/chimerax/map/volume.py", line 1558, in subregion 
    57857 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57858 AttributeError: 'NoneType' object has no attribute 'size' 
    57859  
    57860 AttributeError: 'NoneType' object has no attribute 'size' 
    57861  
    57862 File
    57863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57864 packages/chimerax/map/volume.py", line 1558, in subregion 
    57865 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57866  
    57867 See log for complete Python traceback. 
    57868  
    57869 Traceback (most recent call last): 
    57870 File
    57871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57872 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57873 drew = self.draw_new_frame() 
    57874 File
    57875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57876 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57877 surface.update_clip_caps(view) 
    57878 File
    57879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57880 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57881 subdivision = settings.clipping_cap_subdivision) 
    57882 File
    57883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57884 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57885 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57886 File
    57887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57888 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57889 cm.set_geometry(varray, narray, tarray) 
    57890 File
    57891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57892 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57893 arv() 
    57894 File
    57895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57896 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57897 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57898 File
    57899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57900 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57901 s.vertex_colors = self.vertex_colors(report_stats) 
    57902 File
    57903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57904 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57905 values, outside = self.volume_values() 
    57906 File
    57907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57908 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57909 return self.offset_values(v, n, tf) 
    57910 File
    57911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57912 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57913 values, outside = self.vertex_values(v, xf) 
    57914 File
    57915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57916 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57917 out_of_bounds_list = True) 
    57918 File
    57919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57920 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    57921 subregion, step) 
    57922 File
    57923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57924 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    57925 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    57926 File
    57927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57928 packages/chimerax/map/volume.py", line 1243, in
    57929 matrix_indices_to_xyz_transform 
    57930 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    57931 File
    57932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57933 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    57934 r = self.subregion(step, subregion) 
    57935 File
    57936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57937 packages/chimerax/map/volume.py", line 1558, in subregion 
    57938 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57939 AttributeError: 'NoneType' object has no attribute 'size' 
    57940  
    57941 AttributeError: 'NoneType' object has no attribute 'size' 
    57942  
    57943 File
    57944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57945 packages/chimerax/map/volume.py", line 1558, in subregion 
    57946 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    57947  
    57948 See log for complete Python traceback. 
    57949  
    57950 Traceback (most recent call last): 
    57951 File
    57952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57953 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    57954 drew = self.draw_new_frame() 
    57955 File
    57956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57957 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    57958 surface.update_clip_caps(view) 
    57959 File
    57960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57961 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    57962 subdivision = settings.clipping_cap_subdivision) 
    57963 File
    57964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57965 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    57966 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    57967 File
    57968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57969 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    57970 cm.set_geometry(varray, narray, tarray) 
    57971 File
    57972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57973 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    57974 arv() 
    57975 File
    57976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57977 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    57978 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    57979 File
    57980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57981 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    57982 s.vertex_colors = self.vertex_colors(report_stats) 
    57983 File
    57984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57985 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    57986 values, outside = self.volume_values() 
    57987 File
    57988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57989 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    57990 return self.offset_values(v, n, tf) 
    57991 File
    57992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57993 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    57994 values, outside = self.vertex_values(v, xf) 
    57995 File
    57996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    57997 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    57998 out_of_bounds_list = True) 
    57999 File
    58000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58001 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58002 subregion, step) 
    58003 File
    58004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58005 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58006 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58007 File
    58008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58009 packages/chimerax/map/volume.py", line 1243, in
    58010 matrix_indices_to_xyz_transform 
    58011 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58012 File
    58013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58014 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58015 r = self.subregion(step, subregion) 
    58016 File
    58017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58018 packages/chimerax/map/volume.py", line 1558, in subregion 
    58019 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58020 AttributeError: 'NoneType' object has no attribute 'size' 
    58021  
    58022 AttributeError: 'NoneType' object has no attribute 'size' 
    58023  
    58024 File
    58025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58026 packages/chimerax/map/volume.py", line 1558, in subregion 
    58027 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58028  
    58029 See log for complete Python traceback. 
    58030  
    58031 Traceback (most recent call last): 
    58032 File
    58033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58034 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58035 drew = self.draw_new_frame() 
    58036 File
    58037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58038 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58039 surface.update_clip_caps(view) 
    58040 File
    58041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58042 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58043 subdivision = settings.clipping_cap_subdivision) 
    58044 File
    58045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58046 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58047 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58048 File
    58049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58050 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58051 cm.set_geometry(varray, narray, tarray) 
    58052 File
    58053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58054 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58055 arv() 
    58056 File
    58057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58058 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58059 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58060 File
    58061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58062 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58063 s.vertex_colors = self.vertex_colors(report_stats) 
    58064 File
    58065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58066 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58067 values, outside = self.volume_values() 
    58068 File
    58069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58070 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58071 return self.offset_values(v, n, tf) 
    58072 File
    58073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58074 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58075 values, outside = self.vertex_values(v, xf) 
    58076 File
    58077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58078 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58079 out_of_bounds_list = True) 
    58080 File
    58081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58082 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58083 subregion, step) 
    58084 File
    58085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58086 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58087 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58088 File
    58089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58090 packages/chimerax/map/volume.py", line 1243, in
    58091 matrix_indices_to_xyz_transform 
    58092 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58093 File
    58094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58095 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58096 r = self.subregion(step, subregion) 
    58097 File
    58098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58099 packages/chimerax/map/volume.py", line 1558, in subregion 
    58100 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58101 AttributeError: 'NoneType' object has no attribute 'size' 
    58102  
    58103 AttributeError: 'NoneType' object has no attribute 'size' 
    58104  
    58105 File
    58106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58107 packages/chimerax/map/volume.py", line 1558, in subregion 
    58108 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58109  
    58110 See log for complete Python traceback. 
    58111  
    58112 Traceback (most recent call last): 
    58113 File
    58114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58115 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58116 drew = self.draw_new_frame() 
    58117 File
    58118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58119 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58120 surface.update_clip_caps(view) 
    58121 File
    58122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58123 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58124 subdivision = settings.clipping_cap_subdivision) 
    58125 File
    58126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58127 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58128 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58129 File
    58130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58131 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58132 cm.set_geometry(varray, narray, tarray) 
    58133 File
    58134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58135 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58136 arv() 
    58137 File
    58138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58139 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58140 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58141 File
    58142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58143 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58144 s.vertex_colors = self.vertex_colors(report_stats) 
    58145 File
    58146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58147 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58148 values, outside = self.volume_values() 
    58149 File
    58150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58151 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58152 return self.offset_values(v, n, tf) 
    58153 File
    58154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58155 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58156 values, outside = self.vertex_values(v, xf) 
    58157 File
    58158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58159 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58160 out_of_bounds_list = True) 
    58161 File
    58162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58163 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58164 subregion, step) 
    58165 File
    58166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58167 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58168 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58169 File
    58170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58171 packages/chimerax/map/volume.py", line 1243, in
    58172 matrix_indices_to_xyz_transform 
    58173 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58174 File
    58175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58176 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58177 r = self.subregion(step, subregion) 
    58178 File
    58179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58180 packages/chimerax/map/volume.py", line 1558, in subregion 
    58181 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58182 AttributeError: 'NoneType' object has no attribute 'size' 
    58183  
    58184 AttributeError: 'NoneType' object has no attribute 'size' 
    58185  
    58186 File
    58187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58188 packages/chimerax/map/volume.py", line 1558, in subregion 
    58189 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58190  
    58191 See log for complete Python traceback. 
    58192  
    58193 Traceback (most recent call last): 
    58194 File
    58195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58196 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58197 drew = self.draw_new_frame() 
    58198 File
    58199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58200 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58201 surface.update_clip_caps(view) 
    58202 File
    58203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58204 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58205 subdivision = settings.clipping_cap_subdivision) 
    58206 File
    58207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58208 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58209 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58210 File
    58211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58212 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58213 cm.set_geometry(varray, narray, tarray) 
    58214 File
    58215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58216 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58217 arv() 
    58218 File
    58219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58220 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58221 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58222 File
    58223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58224 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58225 s.vertex_colors = self.vertex_colors(report_stats) 
    58226 File
    58227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58228 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58229 values, outside = self.volume_values() 
    58230 File
    58231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58232 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58233 return self.offset_values(v, n, tf) 
    58234 File
    58235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58236 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58237 values, outside = self.vertex_values(v, xf) 
    58238 File
    58239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58240 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58241 out_of_bounds_list = True) 
    58242 File
    58243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58244 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58245 subregion, step) 
    58246 File
    58247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58248 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58249 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58250 File
    58251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58252 packages/chimerax/map/volume.py", line 1243, in
    58253 matrix_indices_to_xyz_transform 
    58254 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58255 File
    58256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58257 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58258 r = self.subregion(step, subregion) 
    58259 File
    58260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58261 packages/chimerax/map/volume.py", line 1558, in subregion 
    58262 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58263 AttributeError: 'NoneType' object has no attribute 'size' 
    58264  
    58265 AttributeError: 'NoneType' object has no attribute 'size' 
    58266  
    58267 File
    58268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58269 packages/chimerax/map/volume.py", line 1558, in subregion 
    58270 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58271  
    58272 See log for complete Python traceback. 
    58273  
    58274 Traceback (most recent call last): 
    58275 File
    58276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58277 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58278 drew = self.draw_new_frame() 
    58279 File
    58280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58281 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58282 surface.update_clip_caps(view) 
    58283 File
    58284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58285 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58286 subdivision = settings.clipping_cap_subdivision) 
    58287 File
    58288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58289 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58290 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58291 File
    58292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58293 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58294 cm.set_geometry(varray, narray, tarray) 
    58295 File
    58296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58297 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58298 arv() 
    58299 File
    58300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58301 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58302 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58303 File
    58304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58305 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58306 s.vertex_colors = self.vertex_colors(report_stats) 
    58307 File
    58308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58309 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58310 values, outside = self.volume_values() 
    58311 File
    58312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58313 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58314 return self.offset_values(v, n, tf) 
    58315 File
    58316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58317 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58318 values, outside = self.vertex_values(v, xf) 
    58319 File
    58320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58321 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58322 out_of_bounds_list = True) 
    58323 File
    58324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58325 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58326 subregion, step) 
    58327 File
    58328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58329 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58330 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58331 File
    58332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58333 packages/chimerax/map/volume.py", line 1243, in
    58334 matrix_indices_to_xyz_transform 
    58335 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58336 File
    58337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58338 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58339 r = self.subregion(step, subregion) 
    58340 File
    58341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58342 packages/chimerax/map/volume.py", line 1558, in subregion 
    58343 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58344 AttributeError: 'NoneType' object has no attribute 'size' 
    58345  
    58346 AttributeError: 'NoneType' object has no attribute 'size' 
    58347  
    58348 File
    58349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58350 packages/chimerax/map/volume.py", line 1558, in subregion 
    58351 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58352  
    58353 See log for complete Python traceback. 
    58354  
    58355 Traceback (most recent call last): 
    58356 File
    58357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58358 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58359 drew = self.draw_new_frame() 
    58360 File
    58361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58362 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58363 surface.update_clip_caps(view) 
    58364 File
    58365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58366 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58367 subdivision = settings.clipping_cap_subdivision) 
    58368 File
    58369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58370 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58371 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58372 File
    58373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58374 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58375 cm.set_geometry(varray, narray, tarray) 
    58376 File
    58377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58378 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58379 arv() 
    58380 File
    58381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58382 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58383 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58384 File
    58385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58386 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58387 s.vertex_colors = self.vertex_colors(report_stats) 
    58388 File
    58389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58390 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58391 values, outside = self.volume_values() 
    58392 File
    58393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58394 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58395 return self.offset_values(v, n, tf) 
    58396 File
    58397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58398 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58399 values, outside = self.vertex_values(v, xf) 
    58400 File
    58401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58402 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58403 out_of_bounds_list = True) 
    58404 File
    58405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58406 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58407 subregion, step) 
    58408 File
    58409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58410 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58411 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58412 File
    58413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58414 packages/chimerax/map/volume.py", line 1243, in
    58415 matrix_indices_to_xyz_transform 
    58416 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58417 File
    58418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58419 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58420 r = self.subregion(step, subregion) 
    58421 File
    58422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58423 packages/chimerax/map/volume.py", line 1558, in subregion 
    58424 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58425 AttributeError: 'NoneType' object has no attribute 'size' 
    58426  
    58427 AttributeError: 'NoneType' object has no attribute 'size' 
    58428  
    58429 File
    58430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58431 packages/chimerax/map/volume.py", line 1558, in subregion 
    58432 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58433  
    58434 See log for complete Python traceback. 
    58435  
    58436 Traceback (most recent call last): 
    58437 File
    58438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58439 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58440 drew = self.draw_new_frame() 
    58441 File
    58442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58443 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58444 surface.update_clip_caps(view) 
    58445 File
    58446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58447 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58448 subdivision = settings.clipping_cap_subdivision) 
    58449 File
    58450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58451 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58452 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58453 File
    58454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58455 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58456 cm.set_geometry(varray, narray, tarray) 
    58457 File
    58458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58459 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58460 arv() 
    58461 File
    58462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58463 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58464 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58465 File
    58466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58467 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58468 s.vertex_colors = self.vertex_colors(report_stats) 
    58469 File
    58470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58471 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58472 values, outside = self.volume_values() 
    58473 File
    58474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58475 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58476 return self.offset_values(v, n, tf) 
    58477 File
    58478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58479 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58480 values, outside = self.vertex_values(v, xf) 
    58481 File
    58482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58483 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58484 out_of_bounds_list = True) 
    58485 File
    58486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58487 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58488 subregion, step) 
    58489 File
    58490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58491 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58492 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58493 File
    58494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58495 packages/chimerax/map/volume.py", line 1243, in
    58496 matrix_indices_to_xyz_transform 
    58497 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58498 File
    58499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58500 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58501 r = self.subregion(step, subregion) 
    58502 File
    58503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58504 packages/chimerax/map/volume.py", line 1558, in subregion 
    58505 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58506 AttributeError: 'NoneType' object has no attribute 'size' 
    58507  
    58508 AttributeError: 'NoneType' object has no attribute 'size' 
    58509  
    58510 File
    58511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58512 packages/chimerax/map/volume.py", line 1558, in subregion 
    58513 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58514  
    58515 See log for complete Python traceback. 
    58516  
    58517 Traceback (most recent call last): 
    58518 File
    58519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58520 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58521 drew = self.draw_new_frame() 
    58522 File
    58523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58524 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58525 surface.update_clip_caps(view) 
    58526 File
    58527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58528 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58529 subdivision = settings.clipping_cap_subdivision) 
    58530 File
    58531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58532 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58533 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58534 File
    58535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58536 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58537 cm.set_geometry(varray, narray, tarray) 
    58538 File
    58539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58540 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58541 arv() 
    58542 File
    58543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58544 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58545 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58546 File
    58547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58548 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58549 s.vertex_colors = self.vertex_colors(report_stats) 
    58550 File
    58551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58552 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58553 values, outside = self.volume_values() 
    58554 File
    58555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58556 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58557 return self.offset_values(v, n, tf) 
    58558 File
    58559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58560 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58561 values, outside = self.vertex_values(v, xf) 
    58562 File
    58563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58564 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58565 out_of_bounds_list = True) 
    58566 File
    58567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58568 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58569 subregion, step) 
    58570 File
    58571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58572 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58573 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58574 File
    58575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58576 packages/chimerax/map/volume.py", line 1243, in
    58577 matrix_indices_to_xyz_transform 
    58578 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58579 File
    58580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58581 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58582 r = self.subregion(step, subregion) 
    58583 File
    58584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58585 packages/chimerax/map/volume.py", line 1558, in subregion 
    58586 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58587 AttributeError: 'NoneType' object has no attribute 'size' 
    58588  
    58589 AttributeError: 'NoneType' object has no attribute 'size' 
    58590  
    58591 File
    58592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58593 packages/chimerax/map/volume.py", line 1558, in subregion 
    58594 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58595  
    58596 See log for complete Python traceback. 
    58597  
    58598 Traceback (most recent call last): 
    58599 File
    58600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58601 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58602 drew = self.draw_new_frame() 
    58603 File
    58604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58605 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58606 surface.update_clip_caps(view) 
    58607 File
    58608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58609 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58610 subdivision = settings.clipping_cap_subdivision) 
    58611 File
    58612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58613 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58614 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58615 File
    58616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58617 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58618 cm.set_geometry(varray, narray, tarray) 
    58619 File
    58620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58621 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58622 arv() 
    58623 File
    58624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58625 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58626 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58627 File
    58628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58629 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58630 s.vertex_colors = self.vertex_colors(report_stats) 
    58631 File
    58632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58633 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58634 values, outside = self.volume_values() 
    58635 File
    58636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58637 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58638 return self.offset_values(v, n, tf) 
    58639 File
    58640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58641 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58642 values, outside = self.vertex_values(v, xf) 
    58643 File
    58644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58645 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58646 out_of_bounds_list = True) 
    58647 File
    58648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58649 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58650 subregion, step) 
    58651 File
    58652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58653 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58654 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58655 File
    58656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58657 packages/chimerax/map/volume.py", line 1243, in
    58658 matrix_indices_to_xyz_transform 
    58659 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58660 File
    58661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58662 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58663 r = self.subregion(step, subregion) 
    58664 File
    58665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58666 packages/chimerax/map/volume.py", line 1558, in subregion 
    58667 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58668 AttributeError: 'NoneType' object has no attribute 'size' 
    58669  
    58670 AttributeError: 'NoneType' object has no attribute 'size' 
    58671  
    58672 File
    58673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58674 packages/chimerax/map/volume.py", line 1558, in subregion 
    58675 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58676  
    58677 See log for complete Python traceback. 
    58678  
    58679 Traceback (most recent call last): 
    58680 File
    58681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58682 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58683 drew = self.draw_new_frame() 
    58684 File
    58685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58686 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58687 surface.update_clip_caps(view) 
    58688 File
    58689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58690 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58691 subdivision = settings.clipping_cap_subdivision) 
    58692 File
    58693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58694 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58695 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58696 File
    58697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58698 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58699 cm.set_geometry(varray, narray, tarray) 
    58700 File
    58701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58702 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58703 arv() 
    58704 File
    58705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58706 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58707 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58708 File
    58709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58710 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58711 s.vertex_colors = self.vertex_colors(report_stats) 
    58712 File
    58713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58714 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58715 values, outside = self.volume_values() 
    58716 File
    58717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58718 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58719 return self.offset_values(v, n, tf) 
    58720 File
    58721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58722 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58723 values, outside = self.vertex_values(v, xf) 
    58724 File
    58725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58726 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58727 out_of_bounds_list = True) 
    58728 File
    58729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58730 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58731 subregion, step) 
    58732 File
    58733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58734 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58735 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58736 File
    58737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58738 packages/chimerax/map/volume.py", line 1243, in
    58739 matrix_indices_to_xyz_transform 
    58740 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58741 File
    58742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58743 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58744 r = self.subregion(step, subregion) 
    58745 File
    58746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58747 packages/chimerax/map/volume.py", line 1558, in subregion 
    58748 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58749 AttributeError: 'NoneType' object has no attribute 'size' 
    58750  
    58751 AttributeError: 'NoneType' object has no attribute 'size' 
    58752  
    58753 File
    58754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58755 packages/chimerax/map/volume.py", line 1558, in subregion 
    58756 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58757  
    58758 See log for complete Python traceback. 
    58759  
    58760 Traceback (most recent call last): 
    58761 File
    58762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58763 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58764 drew = self.draw_new_frame() 
    58765 File
    58766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58767 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58768 surface.update_clip_caps(view) 
    58769 File
    58770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58771 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58772 subdivision = settings.clipping_cap_subdivision) 
    58773 File
    58774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58775 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58776 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58777 File
    58778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58779 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58780 cm.set_geometry(varray, narray, tarray) 
    58781 File
    58782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58783 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58784 arv() 
    58785 File
    58786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58787 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58788 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58789 File
    58790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58791 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58792 s.vertex_colors = self.vertex_colors(report_stats) 
    58793 File
    58794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58795 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58796 values, outside = self.volume_values() 
    58797 File
    58798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58799 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58800 return self.offset_values(v, n, tf) 
    58801 File
    58802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58803 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58804 values, outside = self.vertex_values(v, xf) 
    58805 File
    58806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58807 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58808 out_of_bounds_list = True) 
    58809 File
    58810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58811 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58812 subregion, step) 
    58813 File
    58814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58815 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58816 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58817 File
    58818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58819 packages/chimerax/map/volume.py", line 1243, in
    58820 matrix_indices_to_xyz_transform 
    58821 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58822 File
    58823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58824 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58825 r = self.subregion(step, subregion) 
    58826 File
    58827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58828 packages/chimerax/map/volume.py", line 1558, in subregion 
    58829 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58830 AttributeError: 'NoneType' object has no attribute 'size' 
    58831  
    58832 AttributeError: 'NoneType' object has no attribute 'size' 
    58833  
    58834 File
    58835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58836 packages/chimerax/map/volume.py", line 1558, in subregion 
    58837 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58838  
    58839 See log for complete Python traceback. 
    58840  
    58841 Traceback (most recent call last): 
    58842 File
    58843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58844 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58845 drew = self.draw_new_frame() 
    58846 File
    58847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58848 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58849 surface.update_clip_caps(view) 
    58850 File
    58851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58852 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58853 subdivision = settings.clipping_cap_subdivision) 
    58854 File
    58855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58856 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58857 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58858 File
    58859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58860 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58861 cm.set_geometry(varray, narray, tarray) 
    58862 File
    58863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58864 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58865 arv() 
    58866 File
    58867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58868 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58869 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58870 File
    58871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58872 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58873 s.vertex_colors = self.vertex_colors(report_stats) 
    58874 File
    58875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58876 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58877 values, outside = self.volume_values() 
    58878 File
    58879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58880 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58881 return self.offset_values(v, n, tf) 
    58882 File
    58883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58884 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58885 values, outside = self.vertex_values(v, xf) 
    58886 File
    58887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58888 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58889 out_of_bounds_list = True) 
    58890 File
    58891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58892 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58893 subregion, step) 
    58894 File
    58895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58896 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58897 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58898 File
    58899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58900 packages/chimerax/map/volume.py", line 1243, in
    58901 matrix_indices_to_xyz_transform 
    58902 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58903 File
    58904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58905 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58906 r = self.subregion(step, subregion) 
    58907 File
    58908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58909 packages/chimerax/map/volume.py", line 1558, in subregion 
    58910 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58911 AttributeError: 'NoneType' object has no attribute 'size' 
    58912  
    58913 AttributeError: 'NoneType' object has no attribute 'size' 
    58914  
    58915 File
    58916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58917 packages/chimerax/map/volume.py", line 1558, in subregion 
    58918 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58919  
    58920 See log for complete Python traceback. 
    58921  
    58922 Traceback (most recent call last): 
    58923 File
    58924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58925 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    58926 drew = self.draw_new_frame() 
    58927 File
    58928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58929 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    58930 surface.update_clip_caps(view) 
    58931 File
    58932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58933 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    58934 subdivision = settings.clipping_cap_subdivision) 
    58935 File
    58936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58937 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    58938 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    58939 File
    58940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58941 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    58942 cm.set_geometry(varray, narray, tarray) 
    58943 File
    58944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58945 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    58946 arv() 
    58947 File
    58948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58949 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    58950 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    58951 File
    58952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58953 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    58954 s.vertex_colors = self.vertex_colors(report_stats) 
    58955 File
    58956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58957 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    58958 values, outside = self.volume_values() 
    58959 File
    58960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58961 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    58962 return self.offset_values(v, n, tf) 
    58963 File
    58964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58965 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    58966 values, outside = self.vertex_values(v, xf) 
    58967 File
    58968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58969 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    58970 out_of_bounds_list = True) 
    58971 File
    58972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58973 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    58974 subregion, step) 
    58975 File
    58976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58977 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    58978 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    58979 File
    58980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58981 packages/chimerax/map/volume.py", line 1243, in
    58982 matrix_indices_to_xyz_transform 
    58983 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    58984 File
    58985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58986 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    58987 r = self.subregion(step, subregion) 
    58988 File
    58989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58990 packages/chimerax/map/volume.py", line 1558, in subregion 
    58991 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    58992 AttributeError: 'NoneType' object has no attribute 'size' 
    58993  
    58994 AttributeError: 'NoneType' object has no attribute 'size' 
    58995  
    58996 File
    58997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    58998 packages/chimerax/map/volume.py", line 1558, in subregion 
    58999 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59000  
    59001 See log for complete Python traceback. 
    59002  
    59003 Traceback (most recent call last): 
    59004 File
    59005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59006 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59007 drew = self.draw_new_frame() 
    59008 File
    59009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59010 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59011 surface.update_clip_caps(view) 
    59012 File
    59013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59014 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59015 subdivision = settings.clipping_cap_subdivision) 
    59016 File
    59017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59018 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59019 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59020 File
    59021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59022 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59023 cm.set_geometry(varray, narray, tarray) 
    59024 File
    59025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59026 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59027 arv() 
    59028 File
    59029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59030 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59031 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59032 File
    59033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59034 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59035 s.vertex_colors = self.vertex_colors(report_stats) 
    59036 File
    59037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59038 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59039 values, outside = self.volume_values() 
    59040 File
    59041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59042 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59043 return self.offset_values(v, n, tf) 
    59044 File
    59045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59046 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59047 values, outside = self.vertex_values(v, xf) 
    59048 File
    59049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59050 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59051 out_of_bounds_list = True) 
    59052 File
    59053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59054 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59055 subregion, step) 
    59056 File
    59057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59058 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59059 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59060 File
    59061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59062 packages/chimerax/map/volume.py", line 1243, in
    59063 matrix_indices_to_xyz_transform 
    59064 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59065 File
    59066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59067 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59068 r = self.subregion(step, subregion) 
    59069 File
    59070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59071 packages/chimerax/map/volume.py", line 1558, in subregion 
    59072 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59073 AttributeError: 'NoneType' object has no attribute 'size' 
    59074  
    59075 AttributeError: 'NoneType' object has no attribute 'size' 
    59076  
    59077 File
    59078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59079 packages/chimerax/map/volume.py", line 1558, in subregion 
    59080 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59081  
    59082 See log for complete Python traceback. 
    59083  
    59084 Traceback (most recent call last): 
    59085 File
    59086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59087 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59088 drew = self.draw_new_frame() 
    59089 File
    59090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59091 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59092 surface.update_clip_caps(view) 
    59093 File
    59094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59095 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59096 subdivision = settings.clipping_cap_subdivision) 
    59097 File
    59098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59099 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59100 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59101 File
    59102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59103 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59104 cm.set_geometry(varray, narray, tarray) 
    59105 File
    59106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59107 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59108 arv() 
    59109 File
    59110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59111 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59112 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59113 File
    59114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59115 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59116 s.vertex_colors = self.vertex_colors(report_stats) 
    59117 File
    59118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59119 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59120 values, outside = self.volume_values() 
    59121 File
    59122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59123 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59124 return self.offset_values(v, n, tf) 
    59125 File
    59126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59127 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59128 values, outside = self.vertex_values(v, xf) 
    59129 File
    59130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59131 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59132 out_of_bounds_list = True) 
    59133 File
    59134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59135 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59136 subregion, step) 
    59137 File
    59138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59139 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59140 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59141 File
    59142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59143 packages/chimerax/map/volume.py", line 1243, in
    59144 matrix_indices_to_xyz_transform 
    59145 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59146 File
    59147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59148 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59149 r = self.subregion(step, subregion) 
    59150 File
    59151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59152 packages/chimerax/map/volume.py", line 1558, in subregion 
    59153 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59154 AttributeError: 'NoneType' object has no attribute 'size' 
    59155  
    59156 AttributeError: 'NoneType' object has no attribute 'size' 
    59157  
    59158 File
    59159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59160 packages/chimerax/map/volume.py", line 1558, in subregion 
    59161 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59162  
    59163 See log for complete Python traceback. 
    59164  
    59165 Traceback (most recent call last): 
    59166 File
    59167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59168 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59169 drew = self.draw_new_frame() 
    59170 File
    59171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59172 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59173 surface.update_clip_caps(view) 
    59174 File
    59175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59176 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59177 subdivision = settings.clipping_cap_subdivision) 
    59178 File
    59179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59180 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59181 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59182 File
    59183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59184 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59185 cm.set_geometry(varray, narray, tarray) 
    59186 File
    59187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59188 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59189 arv() 
    59190 File
    59191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59192 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59193 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59194 File
    59195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59196 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59197 s.vertex_colors = self.vertex_colors(report_stats) 
    59198 File
    59199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59200 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59201 values, outside = self.volume_values() 
    59202 File
    59203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59204 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59205 return self.offset_values(v, n, tf) 
    59206 File
    59207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59208 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59209 values, outside = self.vertex_values(v, xf) 
    59210 File
    59211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59212 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59213 out_of_bounds_list = True) 
    59214 File
    59215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59216 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59217 subregion, step) 
    59218 File
    59219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59220 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59221 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59222 File
    59223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59224 packages/chimerax/map/volume.py", line 1243, in
    59225 matrix_indices_to_xyz_transform 
    59226 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59227 File
    59228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59229 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59230 r = self.subregion(step, subregion) 
    59231 File
    59232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59233 packages/chimerax/map/volume.py", line 1558, in subregion 
    59234 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59235 AttributeError: 'NoneType' object has no attribute 'size' 
    59236  
    59237 AttributeError: 'NoneType' object has no attribute 'size' 
    59238  
    59239 File
    59240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59241 packages/chimerax/map/volume.py", line 1558, in subregion 
    59242 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59243  
    59244 See log for complete Python traceback. 
    59245  
    59246 Traceback (most recent call last): 
    59247 File
    59248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59249 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59250 drew = self.draw_new_frame() 
    59251 File
    59252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59253 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59254 surface.update_clip_caps(view) 
    59255 File
    59256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59257 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59258 subdivision = settings.clipping_cap_subdivision) 
    59259 File
    59260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59261 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59262 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59263 File
    59264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59265 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59266 cm.set_geometry(varray, narray, tarray) 
    59267 File
    59268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59269 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59270 arv() 
    59271 File
    59272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59273 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59274 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59275 File
    59276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59277 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59278 s.vertex_colors = self.vertex_colors(report_stats) 
    59279 File
    59280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59281 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59282 values, outside = self.volume_values() 
    59283 File
    59284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59285 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59286 return self.offset_values(v, n, tf) 
    59287 File
    59288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59289 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59290 values, outside = self.vertex_values(v, xf) 
    59291 File
    59292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59293 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59294 out_of_bounds_list = True) 
    59295 File
    59296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59297 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59298 subregion, step) 
    59299 File
    59300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59301 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59302 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59303 File
    59304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59305 packages/chimerax/map/volume.py", line 1243, in
    59306 matrix_indices_to_xyz_transform 
    59307 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59308 File
    59309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59310 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59311 r = self.subregion(step, subregion) 
    59312 File
    59313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59314 packages/chimerax/map/volume.py", line 1558, in subregion 
    59315 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59316 AttributeError: 'NoneType' object has no attribute 'size' 
    59317  
    59318 AttributeError: 'NoneType' object has no attribute 'size' 
    59319  
    59320 File
    59321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59322 packages/chimerax/map/volume.py", line 1558, in subregion 
    59323 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59324  
    59325 See log for complete Python traceback. 
    59326  
    59327 Traceback (most recent call last): 
    59328 File
    59329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59330 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59331 drew = self.draw_new_frame() 
    59332 File
    59333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59334 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59335 surface.update_clip_caps(view) 
    59336 File
    59337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59338 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59339 subdivision = settings.clipping_cap_subdivision) 
    59340 File
    59341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59342 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59343 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59344 File
    59345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59346 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59347 cm.set_geometry(varray, narray, tarray) 
    59348 File
    59349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59350 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59351 arv() 
    59352 File
    59353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59354 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59355 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59356 File
    59357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59358 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59359 s.vertex_colors = self.vertex_colors(report_stats) 
    59360 File
    59361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59362 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59363 values, outside = self.volume_values() 
    59364 File
    59365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59366 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59367 return self.offset_values(v, n, tf) 
    59368 File
    59369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59370 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59371 values, outside = self.vertex_values(v, xf) 
    59372 File
    59373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59374 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59375 out_of_bounds_list = True) 
    59376 File
    59377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59378 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59379 subregion, step) 
    59380 File
    59381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59382 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59383 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59384 File
    59385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59386 packages/chimerax/map/volume.py", line 1243, in
    59387 matrix_indices_to_xyz_transform 
    59388 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59389 File
    59390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59391 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59392 r = self.subregion(step, subregion) 
    59393 File
    59394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59395 packages/chimerax/map/volume.py", line 1558, in subregion 
    59396 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59397 AttributeError: 'NoneType' object has no attribute 'size' 
    59398  
    59399 AttributeError: 'NoneType' object has no attribute 'size' 
    59400  
    59401 File
    59402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59403 packages/chimerax/map/volume.py", line 1558, in subregion 
    59404 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59405  
    59406 See log for complete Python traceback. 
    59407  
    59408 Traceback (most recent call last): 
    59409 File
    59410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59411 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59412 drew = self.draw_new_frame() 
    59413 File
    59414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59415 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59416 surface.update_clip_caps(view) 
    59417 File
    59418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59419 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59420 subdivision = settings.clipping_cap_subdivision) 
    59421 File
    59422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59423 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59424 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59425 File
    59426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59427 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59428 cm.set_geometry(varray, narray, tarray) 
    59429 File
    59430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59431 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59432 arv() 
    59433 File
    59434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59435 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59436 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59437 File
    59438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59439 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59440 s.vertex_colors = self.vertex_colors(report_stats) 
    59441 File
    59442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59443 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59444 values, outside = self.volume_values() 
    59445 File
    59446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59447 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59448 return self.offset_values(v, n, tf) 
    59449 File
    59450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59451 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59452 values, outside = self.vertex_values(v, xf) 
    59453 File
    59454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59455 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59456 out_of_bounds_list = True) 
    59457 File
    59458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59459 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59460 subregion, step) 
    59461 File
    59462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59463 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59464 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59465 File
    59466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59467 packages/chimerax/map/volume.py", line 1243, in
    59468 matrix_indices_to_xyz_transform 
    59469 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59470 File
    59471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59472 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59473 r = self.subregion(step, subregion) 
    59474 File
    59475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59476 packages/chimerax/map/volume.py", line 1558, in subregion 
    59477 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59478 AttributeError: 'NoneType' object has no attribute 'size' 
    59479  
    59480 AttributeError: 'NoneType' object has no attribute 'size' 
    59481  
    59482 File
    59483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59484 packages/chimerax/map/volume.py", line 1558, in subregion 
    59485 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59486  
    59487 See log for complete Python traceback. 
    59488  
    59489 Traceback (most recent call last): 
    59490 File
    59491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59492 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59493 drew = self.draw_new_frame() 
    59494 File
    59495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59496 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59497 surface.update_clip_caps(view) 
    59498 File
    59499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59500 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59501 subdivision = settings.clipping_cap_subdivision) 
    59502 File
    59503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59504 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59505 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59506 File
    59507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59508 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59509 cm.set_geometry(varray, narray, tarray) 
    59510 File
    59511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59512 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59513 arv() 
    59514 File
    59515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59516 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59517 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59518 File
    59519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59520 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59521 s.vertex_colors = self.vertex_colors(report_stats) 
    59522 File
    59523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59524 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59525 values, outside = self.volume_values() 
    59526 File
    59527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59528 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59529 return self.offset_values(v, n, tf) 
    59530 File
    59531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59532 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59533 values, outside = self.vertex_values(v, xf) 
    59534 File
    59535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59536 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59537 out_of_bounds_list = True) 
    59538 File
    59539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59540 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59541 subregion, step) 
    59542 File
    59543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59544 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59545 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59546 File
    59547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59548 packages/chimerax/map/volume.py", line 1243, in
    59549 matrix_indices_to_xyz_transform 
    59550 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59551 File
    59552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59553 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59554 r = self.subregion(step, subregion) 
    59555 File
    59556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59557 packages/chimerax/map/volume.py", line 1558, in subregion 
    59558 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59559 AttributeError: 'NoneType' object has no attribute 'size' 
    59560  
    59561 AttributeError: 'NoneType' object has no attribute 'size' 
    59562  
    59563 File
    59564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59565 packages/chimerax/map/volume.py", line 1558, in subregion 
    59566 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59567  
    59568 See log for complete Python traceback. 
    59569  
    59570 Traceback (most recent call last): 
    59571 File
    59572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59573 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59574 drew = self.draw_new_frame() 
    59575 File
    59576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59577 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59578 surface.update_clip_caps(view) 
    59579 File
    59580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59581 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59582 subdivision = settings.clipping_cap_subdivision) 
    59583 File
    59584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59585 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59586 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59587 File
    59588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59589 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59590 cm.set_geometry(varray, narray, tarray) 
    59591 File
    59592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59593 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59594 arv() 
    59595 File
    59596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59597 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59598 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59599 File
    59600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59601 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59602 s.vertex_colors = self.vertex_colors(report_stats) 
    59603 File
    59604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59605 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59606 values, outside = self.volume_values() 
    59607 File
    59608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59609 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59610 return self.offset_values(v, n, tf) 
    59611 File
    59612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59613 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59614 values, outside = self.vertex_values(v, xf) 
    59615 File
    59616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59617 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59618 out_of_bounds_list = True) 
    59619 File
    59620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59621 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59622 subregion, step) 
    59623 File
    59624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59625 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59626 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59627 File
    59628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59629 packages/chimerax/map/volume.py", line 1243, in
    59630 matrix_indices_to_xyz_transform 
    59631 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59632 File
    59633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59634 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59635 r = self.subregion(step, subregion) 
    59636 File
    59637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59638 packages/chimerax/map/volume.py", line 1558, in subregion 
    59639 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59640 AttributeError: 'NoneType' object has no attribute 'size' 
    59641  
    59642 AttributeError: 'NoneType' object has no attribute 'size' 
    59643  
    59644 File
    59645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59646 packages/chimerax/map/volume.py", line 1558, in subregion 
    59647 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59648  
    59649 See log for complete Python traceback. 
    59650  
    59651 Traceback (most recent call last): 
    59652 File
    59653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59654 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59655 drew = self.draw_new_frame() 
    59656 File
    59657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59658 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59659 surface.update_clip_caps(view) 
    59660 File
    59661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59662 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59663 subdivision = settings.clipping_cap_subdivision) 
    59664 File
    59665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59666 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59667 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59668 File
    59669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59670 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59671 cm.set_geometry(varray, narray, tarray) 
    59672 File
    59673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59674 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59675 arv() 
    59676 File
    59677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59678 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59679 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59680 File
    59681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59682 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59683 s.vertex_colors = self.vertex_colors(report_stats) 
    59684 File
    59685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59686 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59687 values, outside = self.volume_values() 
    59688 File
    59689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59690 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59691 return self.offset_values(v, n, tf) 
    59692 File
    59693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59694 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59695 values, outside = self.vertex_values(v, xf) 
    59696 File
    59697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59698 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59699 out_of_bounds_list = True) 
    59700 File
    59701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59702 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59703 subregion, step) 
    59704 File
    59705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59706 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59707 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59708 File
    59709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59710 packages/chimerax/map/volume.py", line 1243, in
    59711 matrix_indices_to_xyz_transform 
    59712 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59713 File
    59714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59715 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59716 r = self.subregion(step, subregion) 
    59717 File
    59718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59719 packages/chimerax/map/volume.py", line 1558, in subregion 
    59720 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59721 AttributeError: 'NoneType' object has no attribute 'size' 
    59722  
    59723 AttributeError: 'NoneType' object has no attribute 'size' 
    59724  
    59725 File
    59726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59727 packages/chimerax/map/volume.py", line 1558, in subregion 
    59728 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59729  
    59730 See log for complete Python traceback. 
    59731  
    59732 Traceback (most recent call last): 
    59733 File
    59734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59735 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59736 drew = self.draw_new_frame() 
    59737 File
    59738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59739 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59740 surface.update_clip_caps(view) 
    59741 File
    59742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59743 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59744 subdivision = settings.clipping_cap_subdivision) 
    59745 File
    59746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59747 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59748 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59749 File
    59750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59751 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59752 cm.set_geometry(varray, narray, tarray) 
    59753 File
    59754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59755 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59756 arv() 
    59757 File
    59758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59759 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59760 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59761 File
    59762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59763 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59764 s.vertex_colors = self.vertex_colors(report_stats) 
    59765 File
    59766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59767 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59768 values, outside = self.volume_values() 
    59769 File
    59770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59771 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59772 return self.offset_values(v, n, tf) 
    59773 File
    59774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59775 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59776 values, outside = self.vertex_values(v, xf) 
    59777 File
    59778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59779 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59780 out_of_bounds_list = True) 
    59781 File
    59782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59783 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59784 subregion, step) 
    59785 File
    59786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59787 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59788 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59789 File
    59790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59791 packages/chimerax/map/volume.py", line 1243, in
    59792 matrix_indices_to_xyz_transform 
    59793 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59794 File
    59795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59796 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59797 r = self.subregion(step, subregion) 
    59798 File
    59799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59800 packages/chimerax/map/volume.py", line 1558, in subregion 
    59801 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59802 AttributeError: 'NoneType' object has no attribute 'size' 
    59803  
    59804 AttributeError: 'NoneType' object has no attribute 'size' 
    59805  
    59806 File
    59807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59808 packages/chimerax/map/volume.py", line 1558, in subregion 
    59809 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59810  
    59811 See log for complete Python traceback. 
    59812  
    59813 Traceback (most recent call last): 
    59814 File
    59815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59816 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59817 drew = self.draw_new_frame() 
    59818 File
    59819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59820 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59821 surface.update_clip_caps(view) 
    59822 File
    59823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59824 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59825 subdivision = settings.clipping_cap_subdivision) 
    59826 File
    59827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59828 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59829 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59830 File
    59831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59832 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59833 cm.set_geometry(varray, narray, tarray) 
    59834 File
    59835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59836 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59837 arv() 
    59838 File
    59839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59840 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59841 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59842 File
    59843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59844 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59845 s.vertex_colors = self.vertex_colors(report_stats) 
    59846 File
    59847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59848 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59849 values, outside = self.volume_values() 
    59850 File
    59851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59852 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59853 return self.offset_values(v, n, tf) 
    59854 File
    59855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59856 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59857 values, outside = self.vertex_values(v, xf) 
    59858 File
    59859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59860 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59861 out_of_bounds_list = True) 
    59862 File
    59863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59864 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59865 subregion, step) 
    59866 File
    59867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59868 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59869 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59870 File
    59871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59872 packages/chimerax/map/volume.py", line 1243, in
    59873 matrix_indices_to_xyz_transform 
    59874 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59875 File
    59876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59877 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59878 r = self.subregion(step, subregion) 
    59879 File
    59880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59881 packages/chimerax/map/volume.py", line 1558, in subregion 
    59882 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59883 AttributeError: 'NoneType' object has no attribute 'size' 
    59884  
    59885 AttributeError: 'NoneType' object has no attribute 'size' 
    59886  
    59887 File
    59888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59889 packages/chimerax/map/volume.py", line 1558, in subregion 
    59890 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59891  
    59892 See log for complete Python traceback. 
    59893  
    59894 Traceback (most recent call last): 
    59895 File
    59896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59897 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59898 drew = self.draw_new_frame() 
    59899 File
    59900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59901 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59902 surface.update_clip_caps(view) 
    59903 File
    59904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59905 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59906 subdivision = settings.clipping_cap_subdivision) 
    59907 File
    59908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59909 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59910 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59911 File
    59912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59913 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59914 cm.set_geometry(varray, narray, tarray) 
    59915 File
    59916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59917 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59918 arv() 
    59919 File
    59920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59921 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    59922 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    59923 File
    59924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59925 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    59926 s.vertex_colors = self.vertex_colors(report_stats) 
    59927 File
    59928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59929 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    59930 values, outside = self.volume_values() 
    59931 File
    59932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59933 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    59934 return self.offset_values(v, n, tf) 
    59935 File
    59936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59937 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    59938 values, outside = self.vertex_values(v, xf) 
    59939 File
    59940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59941 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    59942 out_of_bounds_list = True) 
    59943 File
    59944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59945 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    59946 subregion, step) 
    59947 File
    59948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59949 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    59950 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    59951 File
    59952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59953 packages/chimerax/map/volume.py", line 1243, in
    59954 matrix_indices_to_xyz_transform 
    59955 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    59956 File
    59957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59958 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    59959 r = self.subregion(step, subregion) 
    59960 File
    59961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59962 packages/chimerax/map/volume.py", line 1558, in subregion 
    59963 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59964 AttributeError: 'NoneType' object has no attribute 'size' 
    59965  
    59966 AttributeError: 'NoneType' object has no attribute 'size' 
    59967  
    59968 File
    59969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59970 packages/chimerax/map/volume.py", line 1558, in subregion 
    59971 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    59972  
    59973 See log for complete Python traceback. 
    59974  
    59975 Traceback (most recent call last): 
    59976 File
    59977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59978 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    59979 drew = self.draw_new_frame() 
    59980 File
    59981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59982 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    59983 surface.update_clip_caps(view) 
    59984 File
    59985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59986 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    59987 subdivision = settings.clipping_cap_subdivision) 
    59988 File
    59989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59990 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    59991 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    59992 File
    59993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59994 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    59995 cm.set_geometry(varray, narray, tarray) 
    59996 File
    59997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    59998 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    59999 arv() 
    60000 File
    60001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60002 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60003 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60004 File
    60005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60006 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60007 s.vertex_colors = self.vertex_colors(report_stats) 
    60008 File
    60009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60010 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60011 values, outside = self.volume_values() 
    60012 File
    60013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60014 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60015 return self.offset_values(v, n, tf) 
    60016 File
    60017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60018 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60019 values, outside = self.vertex_values(v, xf) 
    60020 File
    60021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60022 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60023 out_of_bounds_list = True) 
    60024 File
    60025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60026 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60027 subregion, step) 
    60028 File
    60029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60030 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60031 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60032 File
    60033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60034 packages/chimerax/map/volume.py", line 1243, in
    60035 matrix_indices_to_xyz_transform 
    60036 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60037 File
    60038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60039 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60040 r = self.subregion(step, subregion) 
    60041 File
    60042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60043 packages/chimerax/map/volume.py", line 1558, in subregion 
    60044 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60045 AttributeError: 'NoneType' object has no attribute 'size' 
    60046  
    60047 AttributeError: 'NoneType' object has no attribute 'size' 
    60048  
    60049 File
    60050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60051 packages/chimerax/map/volume.py", line 1558, in subregion 
    60052 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60053  
    60054 See log for complete Python traceback. 
    60055  
    60056 Traceback (most recent call last): 
    60057 File
    60058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60059 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60060 drew = self.draw_new_frame() 
    60061 File
    60062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60063 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60064 surface.update_clip_caps(view) 
    60065 File
    60066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60067 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60068 subdivision = settings.clipping_cap_subdivision) 
    60069 File
    60070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60071 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60072 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60073 File
    60074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60075 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60076 cm.set_geometry(varray, narray, tarray) 
    60077 File
    60078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60079 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60080 arv() 
    60081 File
    60082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60083 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60084 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60085 File
    60086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60087 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60088 s.vertex_colors = self.vertex_colors(report_stats) 
    60089 File
    60090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60091 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60092 values, outside = self.volume_values() 
    60093 File
    60094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60095 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60096 return self.offset_values(v, n, tf) 
    60097 File
    60098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60099 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60100 values, outside = self.vertex_values(v, xf) 
    60101 File
    60102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60103 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60104 out_of_bounds_list = True) 
    60105 File
    60106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60107 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60108 subregion, step) 
    60109 File
    60110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60111 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60112 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60113 File
    60114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60115 packages/chimerax/map/volume.py", line 1243, in
    60116 matrix_indices_to_xyz_transform 
    60117 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60118 File
    60119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60120 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60121 r = self.subregion(step, subregion) 
    60122 File
    60123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60124 packages/chimerax/map/volume.py", line 1558, in subregion 
    60125 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60126 AttributeError: 'NoneType' object has no attribute 'size' 
    60127  
    60128 AttributeError: 'NoneType' object has no attribute 'size' 
    60129  
    60130 File
    60131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60132 packages/chimerax/map/volume.py", line 1558, in subregion 
    60133 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60134  
    60135 See log for complete Python traceback. 
    60136  
    60137 Traceback (most recent call last): 
    60138 File
    60139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60140 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60141 drew = self.draw_new_frame() 
    60142 File
    60143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60144 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60145 surface.update_clip_caps(view) 
    60146 File
    60147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60148 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60149 subdivision = settings.clipping_cap_subdivision) 
    60150 File
    60151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60152 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60153 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60154 File
    60155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60156 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60157 cm.set_geometry(varray, narray, tarray) 
    60158 File
    60159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60160 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60161 arv() 
    60162 File
    60163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60164 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60165 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60166 File
    60167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60168 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60169 s.vertex_colors = self.vertex_colors(report_stats) 
    60170 File
    60171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60172 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60173 values, outside = self.volume_values() 
    60174 File
    60175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60176 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60177 return self.offset_values(v, n, tf) 
    60178 File
    60179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60180 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60181 values, outside = self.vertex_values(v, xf) 
    60182 File
    60183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60184 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60185 out_of_bounds_list = True) 
    60186 File
    60187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60188 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60189 subregion, step) 
    60190 File
    60191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60192 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60193 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60194 File
    60195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60196 packages/chimerax/map/volume.py", line 1243, in
    60197 matrix_indices_to_xyz_transform 
    60198 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60199 File
    60200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60201 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60202 r = self.subregion(step, subregion) 
    60203 File
    60204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60205 packages/chimerax/map/volume.py", line 1558, in subregion 
    60206 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60207 AttributeError: 'NoneType' object has no attribute 'size' 
    60208  
    60209 AttributeError: 'NoneType' object has no attribute 'size' 
    60210  
    60211 File
    60212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60213 packages/chimerax/map/volume.py", line 1558, in subregion 
    60214 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60215  
    60216 See log for complete Python traceback. 
    60217  
    60218 Traceback (most recent call last): 
    60219 File
    60220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60221 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60222 drew = self.draw_new_frame() 
    60223 File
    60224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60225 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60226 surface.update_clip_caps(view) 
    60227 File
    60228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60229 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60230 subdivision = settings.clipping_cap_subdivision) 
    60231 File
    60232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60233 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60234 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60235 File
    60236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60237 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60238 cm.set_geometry(varray, narray, tarray) 
    60239 File
    60240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60241 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60242 arv() 
    60243 File
    60244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60245 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60246 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60247 File
    60248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60249 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60250 s.vertex_colors = self.vertex_colors(report_stats) 
    60251 File
    60252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60253 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60254 values, outside = self.volume_values() 
    60255 File
    60256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60257 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60258 return self.offset_values(v, n, tf) 
    60259 File
    60260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60261 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60262 values, outside = self.vertex_values(v, xf) 
    60263 File
    60264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60265 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60266 out_of_bounds_list = True) 
    60267 File
    60268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60269 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60270 subregion, step) 
    60271 File
    60272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60273 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60274 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60275 File
    60276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60277 packages/chimerax/map/volume.py", line 1243, in
    60278 matrix_indices_to_xyz_transform 
    60279 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60280 File
    60281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60282 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60283 r = self.subregion(step, subregion) 
    60284 File
    60285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60286 packages/chimerax/map/volume.py", line 1558, in subregion 
    60287 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60288 AttributeError: 'NoneType' object has no attribute 'size' 
    60289  
    60290 AttributeError: 'NoneType' object has no attribute 'size' 
    60291  
    60292 File
    60293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60294 packages/chimerax/map/volume.py", line 1558, in subregion 
    60295 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60296  
    60297 See log for complete Python traceback. 
    60298  
    60299 Traceback (most recent call last): 
    60300 File
    60301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60302 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60303 drew = self.draw_new_frame() 
    60304 File
    60305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60306 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60307 surface.update_clip_caps(view) 
    60308 File
    60309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60310 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60311 subdivision = settings.clipping_cap_subdivision) 
    60312 File
    60313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60314 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60315 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60316 File
    60317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60318 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60319 cm.set_geometry(varray, narray, tarray) 
    60320 File
    60321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60322 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60323 arv() 
    60324 File
    60325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60326 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60327 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60328 File
    60329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60330 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60331 s.vertex_colors = self.vertex_colors(report_stats) 
    60332 File
    60333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60334 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60335 values, outside = self.volume_values() 
    60336 File
    60337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60338 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60339 return self.offset_values(v, n, tf) 
    60340 File
    60341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60342 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60343 values, outside = self.vertex_values(v, xf) 
    60344 File
    60345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60346 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60347 out_of_bounds_list = True) 
    60348 File
    60349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60350 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60351 subregion, step) 
    60352 File
    60353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60354 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60355 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60356 File
    60357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60358 packages/chimerax/map/volume.py", line 1243, in
    60359 matrix_indices_to_xyz_transform 
    60360 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60361 File
    60362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60363 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60364 r = self.subregion(step, subregion) 
    60365 File
    60366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60367 packages/chimerax/map/volume.py", line 1558, in subregion 
    60368 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60369 AttributeError: 'NoneType' object has no attribute 'size' 
    60370  
    60371 AttributeError: 'NoneType' object has no attribute 'size' 
    60372  
    60373 File
    60374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60375 packages/chimerax/map/volume.py", line 1558, in subregion 
    60376 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60377  
    60378 See log for complete Python traceback. 
    60379  
    60380 Traceback (most recent call last): 
    60381 File
    60382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60383 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60384 drew = self.draw_new_frame() 
    60385 File
    60386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60387 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60388 surface.update_clip_caps(view) 
    60389 File
    60390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60391 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60392 subdivision = settings.clipping_cap_subdivision) 
    60393 File
    60394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60395 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60396 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60397 File
    60398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60399 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60400 cm.set_geometry(varray, narray, tarray) 
    60401 File
    60402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60403 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60404 arv() 
    60405 File
    60406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60407 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60408 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60409 File
    60410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60411 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60412 s.vertex_colors = self.vertex_colors(report_stats) 
    60413 File
    60414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60415 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60416 values, outside = self.volume_values() 
    60417 File
    60418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60419 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60420 return self.offset_values(v, n, tf) 
    60421 File
    60422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60423 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60424 values, outside = self.vertex_values(v, xf) 
    60425 File
    60426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60427 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60428 out_of_bounds_list = True) 
    60429 File
    60430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60431 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60432 subregion, step) 
    60433 File
    60434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60435 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60436 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60437 File
    60438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60439 packages/chimerax/map/volume.py", line 1243, in
    60440 matrix_indices_to_xyz_transform 
    60441 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60442 File
    60443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60444 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60445 r = self.subregion(step, subregion) 
    60446 File
    60447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60448 packages/chimerax/map/volume.py", line 1558, in subregion 
    60449 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60450 AttributeError: 'NoneType' object has no attribute 'size' 
    60451  
    60452 AttributeError: 'NoneType' object has no attribute 'size' 
    60453  
    60454 File
    60455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60456 packages/chimerax/map/volume.py", line 1558, in subregion 
    60457 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60458  
    60459 See log for complete Python traceback. 
    60460  
    60461 Traceback (most recent call last): 
    60462 File
    60463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60464 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60465 drew = self.draw_new_frame() 
    60466 File
    60467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60468 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60469 surface.update_clip_caps(view) 
    60470 File
    60471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60472 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60473 subdivision = settings.clipping_cap_subdivision) 
    60474 File
    60475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60476 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60477 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60478 File
    60479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60480 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60481 cm.set_geometry(varray, narray, tarray) 
    60482 File
    60483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60484 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60485 arv() 
    60486 File
    60487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60488 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60489 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60490 File
    60491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60492 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60493 s.vertex_colors = self.vertex_colors(report_stats) 
    60494 File
    60495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60496 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60497 values, outside = self.volume_values() 
    60498 File
    60499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60500 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60501 return self.offset_values(v, n, tf) 
    60502 File
    60503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60504 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60505 values, outside = self.vertex_values(v, xf) 
    60506 File
    60507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60508 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60509 out_of_bounds_list = True) 
    60510 File
    60511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60512 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60513 subregion, step) 
    60514 File
    60515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60516 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60517 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60518 File
    60519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60520 packages/chimerax/map/volume.py", line 1243, in
    60521 matrix_indices_to_xyz_transform 
    60522 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60523 File
    60524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60525 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60526 r = self.subregion(step, subregion) 
    60527 File
    60528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60529 packages/chimerax/map/volume.py", line 1558, in subregion 
    60530 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60531 AttributeError: 'NoneType' object has no attribute 'size' 
    60532  
    60533 AttributeError: 'NoneType' object has no attribute 'size' 
    60534  
    60535 File
    60536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60537 packages/chimerax/map/volume.py", line 1558, in subregion 
    60538 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60539  
    60540 See log for complete Python traceback. 
    60541  
    60542 Traceback (most recent call last): 
    60543 File
    60544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60545 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60546 drew = self.draw_new_frame() 
    60547 File
    60548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60549 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60550 surface.update_clip_caps(view) 
    60551 File
    60552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60553 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60554 subdivision = settings.clipping_cap_subdivision) 
    60555 File
    60556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60557 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60558 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60559 File
    60560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60561 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60562 cm.set_geometry(varray, narray, tarray) 
    60563 File
    60564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60565 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60566 arv() 
    60567 File
    60568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60569 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60570 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60571 File
    60572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60573 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60574 s.vertex_colors = self.vertex_colors(report_stats) 
    60575 File
    60576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60577 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60578 values, outside = self.volume_values() 
    60579 File
    60580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60581 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60582 return self.offset_values(v, n, tf) 
    60583 File
    60584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60585 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60586 values, outside = self.vertex_values(v, xf) 
    60587 File
    60588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60589 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60590 out_of_bounds_list = True) 
    60591 File
    60592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60593 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60594 subregion, step) 
    60595 File
    60596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60597 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60598 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60599 File
    60600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60601 packages/chimerax/map/volume.py", line 1243, in
    60602 matrix_indices_to_xyz_transform 
    60603 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60604 File
    60605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60606 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60607 r = self.subregion(step, subregion) 
    60608 File
    60609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60610 packages/chimerax/map/volume.py", line 1558, in subregion 
    60611 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60612 AttributeError: 'NoneType' object has no attribute 'size' 
    60613  
    60614 AttributeError: 'NoneType' object has no attribute 'size' 
    60615  
    60616 File
    60617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60618 packages/chimerax/map/volume.py", line 1558, in subregion 
    60619 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60620  
    60621 See log for complete Python traceback. 
    60622  
    60623 Traceback (most recent call last): 
    60624 File
    60625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60626 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60627 drew = self.draw_new_frame() 
    60628 File
    60629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60630 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60631 surface.update_clip_caps(view) 
    60632 File
    60633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60634 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60635 subdivision = settings.clipping_cap_subdivision) 
    60636 File
    60637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60638 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60639 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60640 File
    60641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60642 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60643 cm.set_geometry(varray, narray, tarray) 
    60644 File
    60645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60646 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60647 arv() 
    60648 File
    60649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60650 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60651 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60652 File
    60653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60654 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60655 s.vertex_colors = self.vertex_colors(report_stats) 
    60656 File
    60657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60658 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60659 values, outside = self.volume_values() 
    60660 File
    60661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60662 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60663 return self.offset_values(v, n, tf) 
    60664 File
    60665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60666 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60667 values, outside = self.vertex_values(v, xf) 
    60668 File
    60669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60670 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60671 out_of_bounds_list = True) 
    60672 File
    60673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60674 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60675 subregion, step) 
    60676 File
    60677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60678 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60679 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60680 File
    60681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60682 packages/chimerax/map/volume.py", line 1243, in
    60683 matrix_indices_to_xyz_transform 
    60684 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60685 File
    60686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60687 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60688 r = self.subregion(step, subregion) 
    60689 File
    60690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60691 packages/chimerax/map/volume.py", line 1558, in subregion 
    60692 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60693 AttributeError: 'NoneType' object has no attribute 'size' 
    60694  
    60695 AttributeError: 'NoneType' object has no attribute 'size' 
    60696  
    60697 File
    60698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60699 packages/chimerax/map/volume.py", line 1558, in subregion 
    60700 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60701  
    60702 See log for complete Python traceback. 
    60703  
    60704 Traceback (most recent call last): 
    60705 File
    60706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60707 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60708 drew = self.draw_new_frame() 
    60709 File
    60710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60711 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60712 surface.update_clip_caps(view) 
    60713 File
    60714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60715 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60716 subdivision = settings.clipping_cap_subdivision) 
    60717 File
    60718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60719 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60720 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60721 File
    60722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60723 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60724 cm.set_geometry(varray, narray, tarray) 
    60725 File
    60726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60727 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60728 arv() 
    60729 File
    60730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60731 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60732 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60733 File
    60734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60735 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60736 s.vertex_colors = self.vertex_colors(report_stats) 
    60737 File
    60738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60739 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60740 values, outside = self.volume_values() 
    60741 File
    60742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60743 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60744 return self.offset_values(v, n, tf) 
    60745 File
    60746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60747 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60748 values, outside = self.vertex_values(v, xf) 
    60749 File
    60750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60751 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60752 out_of_bounds_list = True) 
    60753 File
    60754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60755 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60756 subregion, step) 
    60757 File
    60758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60759 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60760 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60761 File
    60762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60763 packages/chimerax/map/volume.py", line 1243, in
    60764 matrix_indices_to_xyz_transform 
    60765 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60766 File
    60767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60768 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60769 r = self.subregion(step, subregion) 
    60770 File
    60771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60772 packages/chimerax/map/volume.py", line 1558, in subregion 
    60773 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60774 AttributeError: 'NoneType' object has no attribute 'size' 
    60775  
    60776 AttributeError: 'NoneType' object has no attribute 'size' 
    60777  
    60778 File
    60779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60780 packages/chimerax/map/volume.py", line 1558, in subregion 
    60781 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60782  
    60783 See log for complete Python traceback. 
    60784  
    60785 Traceback (most recent call last): 
    60786 File
    60787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60788 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60789 drew = self.draw_new_frame() 
    60790 File
    60791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60792 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60793 surface.update_clip_caps(view) 
    60794 File
    60795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60796 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60797 subdivision = settings.clipping_cap_subdivision) 
    60798 File
    60799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60800 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60801 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60802 File
    60803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60804 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60805 cm.set_geometry(varray, narray, tarray) 
    60806 File
    60807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60808 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60809 arv() 
    60810 File
    60811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60812 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60813 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60814 File
    60815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60816 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60817 s.vertex_colors = self.vertex_colors(report_stats) 
    60818 File
    60819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60820 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60821 values, outside = self.volume_values() 
    60822 File
    60823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60824 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60825 return self.offset_values(v, n, tf) 
    60826 File
    60827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60828 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60829 values, outside = self.vertex_values(v, xf) 
    60830 File
    60831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60832 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60833 out_of_bounds_list = True) 
    60834 File
    60835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60836 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60837 subregion, step) 
    60838 File
    60839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60840 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60841 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60842 File
    60843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60844 packages/chimerax/map/volume.py", line 1243, in
    60845 matrix_indices_to_xyz_transform 
    60846 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60847 File
    60848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60849 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60850 r = self.subregion(step, subregion) 
    60851 File
    60852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60853 packages/chimerax/map/volume.py", line 1558, in subregion 
    60854 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60855 AttributeError: 'NoneType' object has no attribute 'size' 
    60856  
    60857 AttributeError: 'NoneType' object has no attribute 'size' 
    60858  
    60859 File
    60860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60861 packages/chimerax/map/volume.py", line 1558, in subregion 
    60862 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60863  
    60864 See log for complete Python traceback. 
    60865  
    60866 Traceback (most recent call last): 
    60867 File
    60868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60869 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60870 drew = self.draw_new_frame() 
    60871 File
    60872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60873 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60874 surface.update_clip_caps(view) 
    60875 File
    60876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60877 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60878 subdivision = settings.clipping_cap_subdivision) 
    60879 File
    60880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60881 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60882 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60883 File
    60884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60885 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60886 cm.set_geometry(varray, narray, tarray) 
    60887 File
    60888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60889 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60890 arv() 
    60891 File
    60892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60893 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60894 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60895 File
    60896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60897 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60898 s.vertex_colors = self.vertex_colors(report_stats) 
    60899 File
    60900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60901 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60902 values, outside = self.volume_values() 
    60903 File
    60904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60905 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60906 return self.offset_values(v, n, tf) 
    60907 File
    60908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60909 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60910 values, outside = self.vertex_values(v, xf) 
    60911 File
    60912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60913 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60914 out_of_bounds_list = True) 
    60915 File
    60916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60917 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60918 subregion, step) 
    60919 File
    60920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60921 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    60922 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    60923 File
    60924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60925 packages/chimerax/map/volume.py", line 1243, in
    60926 matrix_indices_to_xyz_transform 
    60927 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    60928 File
    60929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60930 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    60931 r = self.subregion(step, subregion) 
    60932 File
    60933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60934 packages/chimerax/map/volume.py", line 1558, in subregion 
    60935 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60936 AttributeError: 'NoneType' object has no attribute 'size' 
    60937  
    60938 AttributeError: 'NoneType' object has no attribute 'size' 
    60939  
    60940 File
    60941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60942 packages/chimerax/map/volume.py", line 1558, in subregion 
    60943 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    60944  
    60945 See log for complete Python traceback. 
    60946  
    60947 Traceback (most recent call last): 
    60948 File
    60949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60950 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    60951 drew = self.draw_new_frame() 
    60952 File
    60953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60954 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    60955 surface.update_clip_caps(view) 
    60956 File
    60957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60958 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    60959 subdivision = settings.clipping_cap_subdivision) 
    60960 File
    60961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60962 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    60963 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    60964 File
    60965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60966 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    60967 cm.set_geometry(varray, narray, tarray) 
    60968 File
    60969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60970 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    60971 arv() 
    60972 File
    60973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60974 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    60975 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    60976 File
    60977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60978 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    60979 s.vertex_colors = self.vertex_colors(report_stats) 
    60980 File
    60981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60982 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    60983 values, outside = self.volume_values() 
    60984 File
    60985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60986 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    60987 return self.offset_values(v, n, tf) 
    60988 File
    60989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60990 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    60991 values, outside = self.vertex_values(v, xf) 
    60992 File
    60993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60994 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    60995 out_of_bounds_list = True) 
    60996 File
    60997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    60998 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    60999 subregion, step) 
    61000 File
    61001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61002 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61003 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61004 File
    61005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61006 packages/chimerax/map/volume.py", line 1243, in
    61007 matrix_indices_to_xyz_transform 
    61008 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61009 File
    61010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61011 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61012 r = self.subregion(step, subregion) 
    61013 File
    61014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61015 packages/chimerax/map/volume.py", line 1558, in subregion 
    61016 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61017 AttributeError: 'NoneType' object has no attribute 'size' 
    61018  
    61019 AttributeError: 'NoneType' object has no attribute 'size' 
    61020  
    61021 File
    61022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61023 packages/chimerax/map/volume.py", line 1558, in subregion 
    61024 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61025  
    61026 See log for complete Python traceback. 
    61027  
    61028 Traceback (most recent call last): 
    61029 File
    61030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61031 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61032 drew = self.draw_new_frame() 
    61033 File
    61034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61035 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61036 surface.update_clip_caps(view) 
    61037 File
    61038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61039 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61040 subdivision = settings.clipping_cap_subdivision) 
    61041 File
    61042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61043 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61044 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61045 File
    61046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61047 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61048 cm.set_geometry(varray, narray, tarray) 
    61049 File
    61050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61051 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61052 arv() 
    61053 File
    61054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61055 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61056 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61057 File
    61058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61059 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61060 s.vertex_colors = self.vertex_colors(report_stats) 
    61061 File
    61062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61063 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61064 values, outside = self.volume_values() 
    61065 File
    61066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61067 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61068 return self.offset_values(v, n, tf) 
    61069 File
    61070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61071 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61072 values, outside = self.vertex_values(v, xf) 
    61073 File
    61074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61075 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61076 out_of_bounds_list = True) 
    61077 File
    61078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61079 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61080 subregion, step) 
    61081 File
    61082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61083 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61084 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61085 File
    61086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61087 packages/chimerax/map/volume.py", line 1243, in
    61088 matrix_indices_to_xyz_transform 
    61089 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61090 File
    61091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61092 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61093 r = self.subregion(step, subregion) 
    61094 File
    61095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61096 packages/chimerax/map/volume.py", line 1558, in subregion 
    61097 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61098 AttributeError: 'NoneType' object has no attribute 'size' 
    61099  
    61100 AttributeError: 'NoneType' object has no attribute 'size' 
    61101  
    61102 File
    61103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61104 packages/chimerax/map/volume.py", line 1558, in subregion 
    61105 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61106  
    61107 See log for complete Python traceback. 
    61108  
    61109 Traceback (most recent call last): 
    61110 File
    61111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61112 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61113 drew = self.draw_new_frame() 
    61114 File
    61115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61116 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61117 surface.update_clip_caps(view) 
    61118 File
    61119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61120 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61121 subdivision = settings.clipping_cap_subdivision) 
    61122 File
    61123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61124 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61125 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61126 File
    61127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61128 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61129 cm.set_geometry(varray, narray, tarray) 
    61130 File
    61131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61132 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61133 arv() 
    61134 File
    61135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61136 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61137 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61138 File
    61139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61140 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61141 s.vertex_colors = self.vertex_colors(report_stats) 
    61142 File
    61143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61144 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61145 values, outside = self.volume_values() 
    61146 File
    61147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61148 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61149 return self.offset_values(v, n, tf) 
    61150 File
    61151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61152 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61153 values, outside = self.vertex_values(v, xf) 
    61154 File
    61155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61156 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61157 out_of_bounds_list = True) 
    61158 File
    61159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61160 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61161 subregion, step) 
    61162 File
    61163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61164 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61165 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61166 File
    61167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61168 packages/chimerax/map/volume.py", line 1243, in
    61169 matrix_indices_to_xyz_transform 
    61170 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61171 File
    61172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61173 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61174 r = self.subregion(step, subregion) 
    61175 File
    61176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61177 packages/chimerax/map/volume.py", line 1558, in subregion 
    61178 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61179 AttributeError: 'NoneType' object has no attribute 'size' 
    61180  
    61181 AttributeError: 'NoneType' object has no attribute 'size' 
    61182  
    61183 File
    61184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61185 packages/chimerax/map/volume.py", line 1558, in subregion 
    61186 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61187  
    61188 See log for complete Python traceback. 
    61189  
    61190 Traceback (most recent call last): 
    61191 File
    61192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61193 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61194 drew = self.draw_new_frame() 
    61195 File
    61196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61197 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61198 surface.update_clip_caps(view) 
    61199 File
    61200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61201 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61202 subdivision = settings.clipping_cap_subdivision) 
    61203 File
    61204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61205 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61206 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61207 File
    61208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61209 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61210 cm.set_geometry(varray, narray, tarray) 
    61211 File
    61212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61213 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61214 arv() 
    61215 File
    61216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61217 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61218 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61219 File
    61220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61221 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61222 s.vertex_colors = self.vertex_colors(report_stats) 
    61223 File
    61224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61225 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61226 values, outside = self.volume_values() 
    61227 File
    61228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61229 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61230 return self.offset_values(v, n, tf) 
    61231 File
    61232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61233 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61234 values, outside = self.vertex_values(v, xf) 
    61235 File
    61236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61237 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61238 out_of_bounds_list = True) 
    61239 File
    61240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61241 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61242 subregion, step) 
    61243 File
    61244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61245 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61246 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61247 File
    61248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61249 packages/chimerax/map/volume.py", line 1243, in
    61250 matrix_indices_to_xyz_transform 
    61251 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61252 File
    61253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61254 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61255 r = self.subregion(step, subregion) 
    61256 File
    61257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61258 packages/chimerax/map/volume.py", line 1558, in subregion 
    61259 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61260 AttributeError: 'NoneType' object has no attribute 'size' 
    61261  
    61262 AttributeError: 'NoneType' object has no attribute 'size' 
    61263  
    61264 File
    61265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61266 packages/chimerax/map/volume.py", line 1558, in subregion 
    61267 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61268  
    61269 See log for complete Python traceback. 
    61270  
    61271 Traceback (most recent call last): 
    61272 File
    61273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61274 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61275 drew = self.draw_new_frame() 
    61276 File
    61277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61278 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61279 surface.update_clip_caps(view) 
    61280 File
    61281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61282 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61283 subdivision = settings.clipping_cap_subdivision) 
    61284 File
    61285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61286 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61287 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61288 File
    61289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61290 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61291 cm.set_geometry(varray, narray, tarray) 
    61292 File
    61293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61294 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61295 arv() 
    61296 File
    61297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61298 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61299 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61300 File
    61301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61302 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61303 s.vertex_colors = self.vertex_colors(report_stats) 
    61304 File
    61305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61306 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61307 values, outside = self.volume_values() 
    61308 File
    61309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61310 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61311 return self.offset_values(v, n, tf) 
    61312 File
    61313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61314 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61315 values, outside = self.vertex_values(v, xf) 
    61316 File
    61317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61318 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61319 out_of_bounds_list = True) 
    61320 File
    61321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61322 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61323 subregion, step) 
    61324 File
    61325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61326 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61327 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61328 File
    61329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61330 packages/chimerax/map/volume.py", line 1243, in
    61331 matrix_indices_to_xyz_transform 
    61332 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61333 File
    61334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61335 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61336 r = self.subregion(step, subregion) 
    61337 File
    61338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61339 packages/chimerax/map/volume.py", line 1558, in subregion 
    61340 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61341 AttributeError: 'NoneType' object has no attribute 'size' 
    61342  
    61343 AttributeError: 'NoneType' object has no attribute 'size' 
    61344  
    61345 File
    61346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61347 packages/chimerax/map/volume.py", line 1558, in subregion 
    61348 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61349  
    61350 See log for complete Python traceback. 
    61351  
    61352 Traceback (most recent call last): 
    61353 File
    61354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61355 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61356 drew = self.draw_new_frame() 
    61357 File
    61358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61359 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61360 surface.update_clip_caps(view) 
    61361 File
    61362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61363 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61364 subdivision = settings.clipping_cap_subdivision) 
    61365 File
    61366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61367 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61368 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61369 File
    61370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61371 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61372 cm.set_geometry(varray, narray, tarray) 
    61373 File
    61374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61375 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61376 arv() 
    61377 File
    61378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61379 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61380 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61381 File
    61382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61383 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61384 s.vertex_colors = self.vertex_colors(report_stats) 
    61385 File
    61386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61387 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61388 values, outside = self.volume_values() 
    61389 File
    61390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61391 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61392 return self.offset_values(v, n, tf) 
    61393 File
    61394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61395 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61396 values, outside = self.vertex_values(v, xf) 
    61397 File
    61398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61399 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61400 out_of_bounds_list = True) 
    61401 File
    61402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61403 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61404 subregion, step) 
    61405 File
    61406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61407 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61408 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61409 File
    61410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61411 packages/chimerax/map/volume.py", line 1243, in
    61412 matrix_indices_to_xyz_transform 
    61413 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61414 File
    61415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61416 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61417 r = self.subregion(step, subregion) 
    61418 File
    61419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61420 packages/chimerax/map/volume.py", line 1558, in subregion 
    61421 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61422 AttributeError: 'NoneType' object has no attribute 'size' 
    61423  
    61424 AttributeError: 'NoneType' object has no attribute 'size' 
    61425  
    61426 File
    61427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61428 packages/chimerax/map/volume.py", line 1558, in subregion 
    61429 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61430  
    61431 See log for complete Python traceback. 
    61432  
    61433 Traceback (most recent call last): 
    61434 File
    61435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61436 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61437 drew = self.draw_new_frame() 
    61438 File
    61439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61440 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61441 surface.update_clip_caps(view) 
    61442 File
    61443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61444 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61445 subdivision = settings.clipping_cap_subdivision) 
    61446 File
    61447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61448 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61449 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61450 File
    61451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61452 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61453 cm.set_geometry(varray, narray, tarray) 
    61454 File
    61455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61456 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61457 arv() 
    61458 File
    61459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61460 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61461 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61462 File
    61463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61464 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61465 s.vertex_colors = self.vertex_colors(report_stats) 
    61466 File
    61467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61468 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61469 values, outside = self.volume_values() 
    61470 File
    61471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61472 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61473 return self.offset_values(v, n, tf) 
    61474 File
    61475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61476 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61477 values, outside = self.vertex_values(v, xf) 
    61478 File
    61479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61480 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61481 out_of_bounds_list = True) 
    61482 File
    61483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61484 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61485 subregion, step) 
    61486 File
    61487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61488 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61489 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61490 File
    61491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61492 packages/chimerax/map/volume.py", line 1243, in
    61493 matrix_indices_to_xyz_transform 
    61494 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61495 File
    61496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61497 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61498 r = self.subregion(step, subregion) 
    61499 File
    61500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61501 packages/chimerax/map/volume.py", line 1558, in subregion 
    61502 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61503 AttributeError: 'NoneType' object has no attribute 'size' 
    61504  
    61505 AttributeError: 'NoneType' object has no attribute 'size' 
    61506  
    61507 File
    61508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61509 packages/chimerax/map/volume.py", line 1558, in subregion 
    61510 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61511  
    61512 See log for complete Python traceback. 
    61513  
    61514 Traceback (most recent call last): 
    61515 File
    61516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61517 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61518 drew = self.draw_new_frame() 
    61519 File
    61520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61521 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61522 surface.update_clip_caps(view) 
    61523 File
    61524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61525 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61526 subdivision = settings.clipping_cap_subdivision) 
    61527 File
    61528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61529 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61530 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61531 File
    61532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61533 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61534 cm.set_geometry(varray, narray, tarray) 
    61535 File
    61536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61537 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61538 arv() 
    61539 File
    61540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61541 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61542 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61543 File
    61544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61545 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61546 s.vertex_colors = self.vertex_colors(report_stats) 
    61547 File
    61548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61549 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61550 values, outside = self.volume_values() 
    61551 File
    61552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61553 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61554 return self.offset_values(v, n, tf) 
    61555 File
    61556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61557 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61558 values, outside = self.vertex_values(v, xf) 
    61559 File
    61560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61561 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61562 out_of_bounds_list = True) 
    61563 File
    61564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61565 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61566 subregion, step) 
    61567 File
    61568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61569 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61570 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61571 File
    61572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61573 packages/chimerax/map/volume.py", line 1243, in
    61574 matrix_indices_to_xyz_transform 
    61575 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61576 File
    61577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61578 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61579 r = self.subregion(step, subregion) 
    61580 File
    61581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61582 packages/chimerax/map/volume.py", line 1558, in subregion 
    61583 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61584 AttributeError: 'NoneType' object has no attribute 'size' 
    61585  
    61586 AttributeError: 'NoneType' object has no attribute 'size' 
    61587  
    61588 File
    61589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61590 packages/chimerax/map/volume.py", line 1558, in subregion 
    61591 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61592  
    61593 See log for complete Python traceback. 
    61594  
    61595 Traceback (most recent call last): 
    61596 File
    61597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61598 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61599 drew = self.draw_new_frame() 
    61600 File
    61601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61602 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61603 surface.update_clip_caps(view) 
    61604 File
    61605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61606 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61607 subdivision = settings.clipping_cap_subdivision) 
    61608 File
    61609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61610 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61611 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61612 File
    61613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61614 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61615 cm.set_geometry(varray, narray, tarray) 
    61616 File
    61617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61618 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61619 arv() 
    61620 File
    61621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61622 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61623 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61624 File
    61625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61626 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61627 s.vertex_colors = self.vertex_colors(report_stats) 
    61628 File
    61629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61630 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61631 values, outside = self.volume_values() 
    61632 File
    61633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61634 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61635 return self.offset_values(v, n, tf) 
    61636 File
    61637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61638 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61639 values, outside = self.vertex_values(v, xf) 
    61640 File
    61641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61642 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61643 out_of_bounds_list = True) 
    61644 File
    61645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61646 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61647 subregion, step) 
    61648 File
    61649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61650 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61651 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61652 File
    61653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61654 packages/chimerax/map/volume.py", line 1243, in
    61655 matrix_indices_to_xyz_transform 
    61656 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61657 File
    61658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61659 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61660 r = self.subregion(step, subregion) 
    61661 File
    61662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61663 packages/chimerax/map/volume.py", line 1558, in subregion 
    61664 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61665 AttributeError: 'NoneType' object has no attribute 'size' 
    61666  
    61667 AttributeError: 'NoneType' object has no attribute 'size' 
    61668  
    61669 File
    61670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61671 packages/chimerax/map/volume.py", line 1558, in subregion 
    61672 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61673  
    61674 See log for complete Python traceback. 
    61675  
    61676 Traceback (most recent call last): 
    61677 File
    61678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61679 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61680 drew = self.draw_new_frame() 
    61681 File
    61682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61683 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61684 surface.update_clip_caps(view) 
    61685 File
    61686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61687 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61688 subdivision = settings.clipping_cap_subdivision) 
    61689 File
    61690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61691 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61692 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61693 File
    61694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61695 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61696 cm.set_geometry(varray, narray, tarray) 
    61697 File
    61698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61699 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61700 arv() 
    61701 File
    61702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61703 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61704 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61705 File
    61706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61707 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61708 s.vertex_colors = self.vertex_colors(report_stats) 
    61709 File
    61710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61711 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61712 values, outside = self.volume_values() 
    61713 File
    61714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61715 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61716 return self.offset_values(v, n, tf) 
    61717 File
    61718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61719 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61720 values, outside = self.vertex_values(v, xf) 
    61721 File
    61722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61723 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61724 out_of_bounds_list = True) 
    61725 File
    61726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61727 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61728 subregion, step) 
    61729 File
    61730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61731 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61732 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61733 File
    61734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61735 packages/chimerax/map/volume.py", line 1243, in
    61736 matrix_indices_to_xyz_transform 
    61737 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61738 File
    61739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61740 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61741 r = self.subregion(step, subregion) 
    61742 File
    61743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61744 packages/chimerax/map/volume.py", line 1558, in subregion 
    61745 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61746 AttributeError: 'NoneType' object has no attribute 'size' 
    61747  
    61748 AttributeError: 'NoneType' object has no attribute 'size' 
    61749  
    61750 File
    61751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61752 packages/chimerax/map/volume.py", line 1558, in subregion 
    61753 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61754  
    61755 See log for complete Python traceback. 
    61756  
    61757 Traceback (most recent call last): 
    61758 File
    61759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61760 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61761 drew = self.draw_new_frame() 
    61762 File
    61763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61764 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61765 surface.update_clip_caps(view) 
    61766 File
    61767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61768 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61769 subdivision = settings.clipping_cap_subdivision) 
    61770 File
    61771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61772 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61773 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61774 File
    61775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61776 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61777 cm.set_geometry(varray, narray, tarray) 
    61778 File
    61779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61780 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61781 arv() 
    61782 File
    61783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61784 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61785 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61786 File
    61787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61788 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61789 s.vertex_colors = self.vertex_colors(report_stats) 
    61790 File
    61791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61792 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61793 values, outside = self.volume_values() 
    61794 File
    61795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61796 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61797 return self.offset_values(v, n, tf) 
    61798 File
    61799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61800 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61801 values, outside = self.vertex_values(v, xf) 
    61802 File
    61803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61804 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61805 out_of_bounds_list = True) 
    61806 File
    61807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61808 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61809 subregion, step) 
    61810 File
    61811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61812 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61813 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61814 File
    61815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61816 packages/chimerax/map/volume.py", line 1243, in
    61817 matrix_indices_to_xyz_transform 
    61818 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61819 File
    61820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61821 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61822 r = self.subregion(step, subregion) 
    61823 File
    61824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61825 packages/chimerax/map/volume.py", line 1558, in subregion 
    61826 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61827 AttributeError: 'NoneType' object has no attribute 'size' 
    61828  
    61829 AttributeError: 'NoneType' object has no attribute 'size' 
    61830  
    61831 File
    61832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61833 packages/chimerax/map/volume.py", line 1558, in subregion 
    61834 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61835  
    61836 See log for complete Python traceback. 
    61837  
    61838 Traceback (most recent call last): 
    61839 File
    61840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61841 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61842 drew = self.draw_new_frame() 
    61843 File
    61844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61845 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61846 surface.update_clip_caps(view) 
    61847 File
    61848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61849 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61850 subdivision = settings.clipping_cap_subdivision) 
    61851 File
    61852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61853 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61854 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61855 File
    61856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61857 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61858 cm.set_geometry(varray, narray, tarray) 
    61859 File
    61860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61861 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61862 arv() 
    61863 File
    61864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61865 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61866 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61867 File
    61868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61869 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61870 s.vertex_colors = self.vertex_colors(report_stats) 
    61871 File
    61872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61873 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61874 values, outside = self.volume_values() 
    61875 File
    61876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61877 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61878 return self.offset_values(v, n, tf) 
    61879 File
    61880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61881 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61882 values, outside = self.vertex_values(v, xf) 
    61883 File
    61884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61885 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61886 out_of_bounds_list = True) 
    61887 File
    61888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61889 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61890 subregion, step) 
    61891 File
    61892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61893 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61894 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61895 File
    61896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61897 packages/chimerax/map/volume.py", line 1243, in
    61898 matrix_indices_to_xyz_transform 
    61899 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61900 File
    61901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61902 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61903 r = self.subregion(step, subregion) 
    61904 File
    61905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61906 packages/chimerax/map/volume.py", line 1558, in subregion 
    61907 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61908 AttributeError: 'NoneType' object has no attribute 'size' 
    61909  
    61910 AttributeError: 'NoneType' object has no attribute 'size' 
    61911  
    61912 File
    61913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61914 packages/chimerax/map/volume.py", line 1558, in subregion 
    61915 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61916  
    61917 See log for complete Python traceback. 
    61918  
    61919 Traceback (most recent call last): 
    61920 File
    61921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61922 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    61923 drew = self.draw_new_frame() 
    61924 File
    61925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61926 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    61927 surface.update_clip_caps(view) 
    61928 File
    61929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61930 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    61931 subdivision = settings.clipping_cap_subdivision) 
    61932 File
    61933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61934 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    61935 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    61936 File
    61937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61938 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    61939 cm.set_geometry(varray, narray, tarray) 
    61940 File
    61941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61942 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    61943 arv() 
    61944 File
    61945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61946 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    61947 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    61948 File
    61949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61950 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    61951 s.vertex_colors = self.vertex_colors(report_stats) 
    61952 File
    61953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61954 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    61955 values, outside = self.volume_values() 
    61956 File
    61957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61958 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    61959 return self.offset_values(v, n, tf) 
    61960 File
    61961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61962 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    61963 values, outside = self.vertex_values(v, xf) 
    61964 File
    61965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61966 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    61967 out_of_bounds_list = True) 
    61968 File
    61969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61970 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    61971 subregion, step) 
    61972 File
    61973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61974 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    61975 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    61976 File
    61977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61978 packages/chimerax/map/volume.py", line 1243, in
    61979 matrix_indices_to_xyz_transform 
    61980 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    61981 File
    61982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61983 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    61984 r = self.subregion(step, subregion) 
    61985 File
    61986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61987 packages/chimerax/map/volume.py", line 1558, in subregion 
    61988 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61989 AttributeError: 'NoneType' object has no attribute 'size' 
    61990  
    61991 AttributeError: 'NoneType' object has no attribute 'size' 
    61992  
    61993 File
    61994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    61995 packages/chimerax/map/volume.py", line 1558, in subregion 
    61996 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    61997  
    61998 See log for complete Python traceback. 
    61999  
    62000 Traceback (most recent call last): 
    62001 File
    62002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62003 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62004 drew = self.draw_new_frame() 
    62005 File
    62006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62007 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62008 surface.update_clip_caps(view) 
    62009 File
    62010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62011 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62012 subdivision = settings.clipping_cap_subdivision) 
    62013 File
    62014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62015 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62016 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62017 File
    62018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62019 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62020 cm.set_geometry(varray, narray, tarray) 
    62021 File
    62022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62023 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62024 arv() 
    62025 File
    62026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62027 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62028 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62029 File
    62030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62031 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62032 s.vertex_colors = self.vertex_colors(report_stats) 
    62033 File
    62034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62035 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62036 values, outside = self.volume_values() 
    62037 File
    62038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62039 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62040 return self.offset_values(v, n, tf) 
    62041 File
    62042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62043 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62044 values, outside = self.vertex_values(v, xf) 
    62045 File
    62046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62047 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62048 out_of_bounds_list = True) 
    62049 File
    62050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62051 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62052 subregion, step) 
    62053 File
    62054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62055 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62056 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62057 File
    62058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62059 packages/chimerax/map/volume.py", line 1243, in
    62060 matrix_indices_to_xyz_transform 
    62061 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62062 File
    62063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62064 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62065 r = self.subregion(step, subregion) 
    62066 File
    62067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62068 packages/chimerax/map/volume.py", line 1558, in subregion 
    62069 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62070 AttributeError: 'NoneType' object has no attribute 'size' 
    62071  
    62072 AttributeError: 'NoneType' object has no attribute 'size' 
    62073  
    62074 File
    62075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62076 packages/chimerax/map/volume.py", line 1558, in subregion 
    62077 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62078  
    62079 See log for complete Python traceback. 
    62080  
    62081 Traceback (most recent call last): 
    62082 File
    62083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62084 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62085 drew = self.draw_new_frame() 
    62086 File
    62087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62088 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62089 surface.update_clip_caps(view) 
    62090 File
    62091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62092 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62093 subdivision = settings.clipping_cap_subdivision) 
    62094 File
    62095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62096 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62097 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62098 File
    62099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62100 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62101 cm.set_geometry(varray, narray, tarray) 
    62102 File
    62103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62104 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62105 arv() 
    62106 File
    62107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62108 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62109 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62110 File
    62111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62112 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62113 s.vertex_colors = self.vertex_colors(report_stats) 
    62114 File
    62115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62116 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62117 values, outside = self.volume_values() 
    62118 File
    62119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62120 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62121 return self.offset_values(v, n, tf) 
    62122 File
    62123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62124 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62125 values, outside = self.vertex_values(v, xf) 
    62126 File
    62127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62128 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62129 out_of_bounds_list = True) 
    62130 File
    62131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62132 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62133 subregion, step) 
    62134 File
    62135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62136 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62137 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62138 File
    62139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62140 packages/chimerax/map/volume.py", line 1243, in
    62141 matrix_indices_to_xyz_transform 
    62142 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62143 File
    62144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62145 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62146 r = self.subregion(step, subregion) 
    62147 File
    62148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62149 packages/chimerax/map/volume.py", line 1558, in subregion 
    62150 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62151 AttributeError: 'NoneType' object has no attribute 'size' 
    62152  
    62153 AttributeError: 'NoneType' object has no attribute 'size' 
    62154  
    62155 File
    62156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62157 packages/chimerax/map/volume.py", line 1558, in subregion 
    62158 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62159  
    62160 See log for complete Python traceback. 
    62161  
    62162 Traceback (most recent call last): 
    62163 File
    62164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62165 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62166 drew = self.draw_new_frame() 
    62167 File
    62168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62169 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62170 surface.update_clip_caps(view) 
    62171 File
    62172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62173 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62174 subdivision = settings.clipping_cap_subdivision) 
    62175 File
    62176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62177 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62178 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62179 File
    62180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62181 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62182 cm.set_geometry(varray, narray, tarray) 
    62183 File
    62184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62185 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62186 arv() 
    62187 File
    62188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62189 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62190 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62191 File
    62192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62193 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62194 s.vertex_colors = self.vertex_colors(report_stats) 
    62195 File
    62196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62197 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62198 values, outside = self.volume_values() 
    62199 File
    62200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62201 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62202 return self.offset_values(v, n, tf) 
    62203 File
    62204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62205 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62206 values, outside = self.vertex_values(v, xf) 
    62207 File
    62208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62209 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62210 out_of_bounds_list = True) 
    62211 File
    62212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62213 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62214 subregion, step) 
    62215 File
    62216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62217 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62218 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62219 File
    62220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62221 packages/chimerax/map/volume.py", line 1243, in
    62222 matrix_indices_to_xyz_transform 
    62223 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62224 File
    62225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62226 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62227 r = self.subregion(step, subregion) 
    62228 File
    62229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62230 packages/chimerax/map/volume.py", line 1558, in subregion 
    62231 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62232 AttributeError: 'NoneType' object has no attribute 'size' 
    62233  
    62234 AttributeError: 'NoneType' object has no attribute 'size' 
    62235  
    62236 File
    62237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62238 packages/chimerax/map/volume.py", line 1558, in subregion 
    62239 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62240  
    62241 See log for complete Python traceback. 
    62242  
    62243 Traceback (most recent call last): 
    62244 File
    62245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62246 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62247 drew = self.draw_new_frame() 
    62248 File
    62249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62250 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62251 surface.update_clip_caps(view) 
    62252 File
    62253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62254 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62255 subdivision = settings.clipping_cap_subdivision) 
    62256 File
    62257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62258 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62259 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62260 File
    62261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62262 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62263 cm.set_geometry(varray, narray, tarray) 
    62264 File
    62265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62266 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62267 arv() 
    62268 File
    62269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62270 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62271 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62272 File
    62273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62274 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62275 s.vertex_colors = self.vertex_colors(report_stats) 
    62276 File
    62277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62278 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62279 values, outside = self.volume_values() 
    62280 File
    62281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62282 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62283 return self.offset_values(v, n, tf) 
    62284 File
    62285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62286 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62287 values, outside = self.vertex_values(v, xf) 
    62288 File
    62289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62290 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62291 out_of_bounds_list = True) 
    62292 File
    62293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62294 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62295 subregion, step) 
    62296 File
    62297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62298 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62299 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62300 File
    62301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62302 packages/chimerax/map/volume.py", line 1243, in
    62303 matrix_indices_to_xyz_transform 
    62304 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62305 File
    62306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62307 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62308 r = self.subregion(step, subregion) 
    62309 File
    62310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62311 packages/chimerax/map/volume.py", line 1558, in subregion 
    62312 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62313 AttributeError: 'NoneType' object has no attribute 'size' 
    62314  
    62315 AttributeError: 'NoneType' object has no attribute 'size' 
    62316  
    62317 File
    62318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62319 packages/chimerax/map/volume.py", line 1558, in subregion 
    62320 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62321  
    62322 See log for complete Python traceback. 
    62323  
    62324 Traceback (most recent call last): 
    62325 File
    62326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62327 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62328 drew = self.draw_new_frame() 
    62329 File
    62330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62331 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62332 surface.update_clip_caps(view) 
    62333 File
    62334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62335 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62336 subdivision = settings.clipping_cap_subdivision) 
    62337 File
    62338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62339 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62340 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62341 File
    62342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62343 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62344 cm.set_geometry(varray, narray, tarray) 
    62345 File
    62346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62347 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62348 arv() 
    62349 File
    62350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62351 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62352 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62353 File
    62354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62355 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62356 s.vertex_colors = self.vertex_colors(report_stats) 
    62357 File
    62358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62359 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62360 values, outside = self.volume_values() 
    62361 File
    62362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62363 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62364 return self.offset_values(v, n, tf) 
    62365 File
    62366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62367 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62368 values, outside = self.vertex_values(v, xf) 
    62369 File
    62370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62371 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62372 out_of_bounds_list = True) 
    62373 File
    62374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62375 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62376 subregion, step) 
    62377 File
    62378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62379 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62380 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62381 File
    62382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62383 packages/chimerax/map/volume.py", line 1243, in
    62384 matrix_indices_to_xyz_transform 
    62385 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62386 File
    62387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62388 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62389 r = self.subregion(step, subregion) 
    62390 File
    62391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62392 packages/chimerax/map/volume.py", line 1558, in subregion 
    62393 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62394 AttributeError: 'NoneType' object has no attribute 'size' 
    62395  
    62396 AttributeError: 'NoneType' object has no attribute 'size' 
    62397  
    62398 File
    62399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62400 packages/chimerax/map/volume.py", line 1558, in subregion 
    62401 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62402  
    62403 See log for complete Python traceback. 
    62404  
    62405 Traceback (most recent call last): 
    62406 File
    62407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62408 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62409 drew = self.draw_new_frame() 
    62410 File
    62411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62412 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62413 surface.update_clip_caps(view) 
    62414 File
    62415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62416 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62417 subdivision = settings.clipping_cap_subdivision) 
    62418 File
    62419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62420 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62421 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62422 File
    62423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62424 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62425 cm.set_geometry(varray, narray, tarray) 
    62426 File
    62427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62428 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62429 arv() 
    62430 File
    62431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62432 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62433 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62434 File
    62435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62436 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62437 s.vertex_colors = self.vertex_colors(report_stats) 
    62438 File
    62439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62440 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62441 values, outside = self.volume_values() 
    62442 File
    62443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62444 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62445 return self.offset_values(v, n, tf) 
    62446 File
    62447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62448 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62449 values, outside = self.vertex_values(v, xf) 
    62450 File
    62451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62452 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62453 out_of_bounds_list = True) 
    62454 File
    62455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62456 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62457 subregion, step) 
    62458 File
    62459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62460 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62461 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62462 File
    62463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62464 packages/chimerax/map/volume.py", line 1243, in
    62465 matrix_indices_to_xyz_transform 
    62466 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62467 File
    62468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62469 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62470 r = self.subregion(step, subregion) 
    62471 File
    62472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62473 packages/chimerax/map/volume.py", line 1558, in subregion 
    62474 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62475 AttributeError: 'NoneType' object has no attribute 'size' 
    62476  
    62477 AttributeError: 'NoneType' object has no attribute 'size' 
    62478  
    62479 File
    62480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62481 packages/chimerax/map/volume.py", line 1558, in subregion 
    62482 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62483  
    62484 See log for complete Python traceback. 
    62485  
    62486 Traceback (most recent call last): 
    62487 File
    62488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62489 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62490 drew = self.draw_new_frame() 
    62491 File
    62492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62493 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62494 surface.update_clip_caps(view) 
    62495 File
    62496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62497 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62498 subdivision = settings.clipping_cap_subdivision) 
    62499 File
    62500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62501 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62502 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62503 File
    62504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62505 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62506 cm.set_geometry(varray, narray, tarray) 
    62507 File
    62508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62509 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62510 arv() 
    62511 File
    62512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62513 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62514 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62515 File
    62516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62517 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62518 s.vertex_colors = self.vertex_colors(report_stats) 
    62519 File
    62520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62521 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62522 values, outside = self.volume_values() 
    62523 File
    62524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62525 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62526 return self.offset_values(v, n, tf) 
    62527 File
    62528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62529 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62530 values, outside = self.vertex_values(v, xf) 
    62531 File
    62532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62533 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62534 out_of_bounds_list = True) 
    62535 File
    62536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62537 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62538 subregion, step) 
    62539 File
    62540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62541 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62542 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62543 File
    62544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62545 packages/chimerax/map/volume.py", line 1243, in
    62546 matrix_indices_to_xyz_transform 
    62547 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62548 File
    62549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62550 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62551 r = self.subregion(step, subregion) 
    62552 File
    62553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62554 packages/chimerax/map/volume.py", line 1558, in subregion 
    62555 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62556 AttributeError: 'NoneType' object has no attribute 'size' 
    62557  
    62558 AttributeError: 'NoneType' object has no attribute 'size' 
    62559  
    62560 File
    62561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62562 packages/chimerax/map/volume.py", line 1558, in subregion 
    62563 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62564  
    62565 See log for complete Python traceback. 
    62566  
    62567 Traceback (most recent call last): 
    62568 File
    62569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62570 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62571 drew = self.draw_new_frame() 
    62572 File
    62573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62574 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62575 surface.update_clip_caps(view) 
    62576 File
    62577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62578 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62579 subdivision = settings.clipping_cap_subdivision) 
    62580 File
    62581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62582 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62583 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62584 File
    62585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62586 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62587 cm.set_geometry(varray, narray, tarray) 
    62588 File
    62589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62590 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62591 arv() 
    62592 File
    62593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62594 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62595 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62596 File
    62597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62598 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62599 s.vertex_colors = self.vertex_colors(report_stats) 
    62600 File
    62601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62602 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62603 values, outside = self.volume_values() 
    62604 File
    62605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62606 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62607 return self.offset_values(v, n, tf) 
    62608 File
    62609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62610 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62611 values, outside = self.vertex_values(v, xf) 
    62612 File
    62613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62614 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62615 out_of_bounds_list = True) 
    62616 File
    62617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62618 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62619 subregion, step) 
    62620 File
    62621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62622 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62623 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62624 File
    62625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62626 packages/chimerax/map/volume.py", line 1243, in
    62627 matrix_indices_to_xyz_transform 
    62628 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62629 File
    62630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62631 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62632 r = self.subregion(step, subregion) 
    62633 File
    62634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62635 packages/chimerax/map/volume.py", line 1558, in subregion 
    62636 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62637 AttributeError: 'NoneType' object has no attribute 'size' 
    62638  
    62639 AttributeError: 'NoneType' object has no attribute 'size' 
    62640  
    62641 File
    62642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62643 packages/chimerax/map/volume.py", line 1558, in subregion 
    62644 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62645  
    62646 See log for complete Python traceback. 
    62647  
    62648 Traceback (most recent call last): 
    62649 File
    62650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62651 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62652 drew = self.draw_new_frame() 
    62653 File
    62654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62655 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62656 surface.update_clip_caps(view) 
    62657 File
    62658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62659 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62660 subdivision = settings.clipping_cap_subdivision) 
    62661 File
    62662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62663 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62664 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62665 File
    62666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62667 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62668 cm.set_geometry(varray, narray, tarray) 
    62669 File
    62670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62671 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62672 arv() 
    62673 File
    62674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62675 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62676 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62677 File
    62678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62679 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62680 s.vertex_colors = self.vertex_colors(report_stats) 
    62681 File
    62682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62683 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62684 values, outside = self.volume_values() 
    62685 File
    62686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62687 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62688 return self.offset_values(v, n, tf) 
    62689 File
    62690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62691 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62692 values, outside = self.vertex_values(v, xf) 
    62693 File
    62694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62695 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62696 out_of_bounds_list = True) 
    62697 File
    62698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62699 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62700 subregion, step) 
    62701 File
    62702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62703 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62704 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62705 File
    62706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62707 packages/chimerax/map/volume.py", line 1243, in
    62708 matrix_indices_to_xyz_transform 
    62709 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62710 File
    62711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62712 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62713 r = self.subregion(step, subregion) 
    62714 File
    62715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62716 packages/chimerax/map/volume.py", line 1558, in subregion 
    62717 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62718 AttributeError: 'NoneType' object has no attribute 'size' 
    62719  
    62720 AttributeError: 'NoneType' object has no attribute 'size' 
    62721  
    62722 File
    62723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62724 packages/chimerax/map/volume.py", line 1558, in subregion 
    62725 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62726  
    62727 See log for complete Python traceback. 
    62728  
    62729 Traceback (most recent call last): 
    62730 File
    62731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62732 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62733 drew = self.draw_new_frame() 
    62734 File
    62735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62736 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62737 surface.update_clip_caps(view) 
    62738 File
    62739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62740 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62741 subdivision = settings.clipping_cap_subdivision) 
    62742 File
    62743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62744 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62745 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62746 File
    62747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62748 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62749 cm.set_geometry(varray, narray, tarray) 
    62750 File
    62751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62752 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62753 arv() 
    62754 File
    62755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62756 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62757 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62758 File
    62759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62760 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62761 s.vertex_colors = self.vertex_colors(report_stats) 
    62762 File
    62763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62764 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62765 values, outside = self.volume_values() 
    62766 File
    62767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62768 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62769 return self.offset_values(v, n, tf) 
    62770 File
    62771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62772 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62773 values, outside = self.vertex_values(v, xf) 
    62774 File
    62775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62776 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62777 out_of_bounds_list = True) 
    62778 File
    62779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62780 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62781 subregion, step) 
    62782 File
    62783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62784 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62785 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62786 File
    62787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62788 packages/chimerax/map/volume.py", line 1243, in
    62789 matrix_indices_to_xyz_transform 
    62790 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62791 File
    62792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62793 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62794 r = self.subregion(step, subregion) 
    62795 File
    62796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62797 packages/chimerax/map/volume.py", line 1558, in subregion 
    62798 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62799 AttributeError: 'NoneType' object has no attribute 'size' 
    62800  
    62801 AttributeError: 'NoneType' object has no attribute 'size' 
    62802  
    62803 File
    62804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62805 packages/chimerax/map/volume.py", line 1558, in subregion 
    62806 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62807  
    62808 See log for complete Python traceback. 
    62809  
    62810 Traceback (most recent call last): 
    62811 File
    62812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62813 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62814 drew = self.draw_new_frame() 
    62815 File
    62816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62817 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62818 surface.update_clip_caps(view) 
    62819 File
    62820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62821 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62822 subdivision = settings.clipping_cap_subdivision) 
    62823 File
    62824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62825 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62826 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62827 File
    62828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62829 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62830 cm.set_geometry(varray, narray, tarray) 
    62831 File
    62832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62833 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62834 arv() 
    62835 File
    62836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62837 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62838 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62839 File
    62840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62841 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62842 s.vertex_colors = self.vertex_colors(report_stats) 
    62843 File
    62844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62845 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62846 values, outside = self.volume_values() 
    62847 File
    62848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62849 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62850 return self.offset_values(v, n, tf) 
    62851 File
    62852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62853 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62854 values, outside = self.vertex_values(v, xf) 
    62855 File
    62856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62857 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62858 out_of_bounds_list = True) 
    62859 File
    62860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62861 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62862 subregion, step) 
    62863 File
    62864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62865 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62866 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62867 File
    62868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62869 packages/chimerax/map/volume.py", line 1243, in
    62870 matrix_indices_to_xyz_transform 
    62871 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62872 File
    62873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62874 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62875 r = self.subregion(step, subregion) 
    62876 File
    62877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62878 packages/chimerax/map/volume.py", line 1558, in subregion 
    62879 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62880 AttributeError: 'NoneType' object has no attribute 'size' 
    62881  
    62882 AttributeError: 'NoneType' object has no attribute 'size' 
    62883  
    62884 File
    62885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62886 packages/chimerax/map/volume.py", line 1558, in subregion 
    62887 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62888  
    62889 See log for complete Python traceback. 
    62890  
    62891 Traceback (most recent call last): 
    62892 File
    62893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62894 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62895 drew = self.draw_new_frame() 
    62896 File
    62897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62898 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62899 surface.update_clip_caps(view) 
    62900 File
    62901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62902 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62903 subdivision = settings.clipping_cap_subdivision) 
    62904 File
    62905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62906 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62907 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62908 File
    62909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62910 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62911 cm.set_geometry(varray, narray, tarray) 
    62912 File
    62913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62914 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62915 arv() 
    62916 File
    62917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62918 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    62919 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    62920 File
    62921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62922 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    62923 s.vertex_colors = self.vertex_colors(report_stats) 
    62924 File
    62925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62926 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    62927 values, outside = self.volume_values() 
    62928 File
    62929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62930 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    62931 return self.offset_values(v, n, tf) 
    62932 File
    62933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62934 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    62935 values, outside = self.vertex_values(v, xf) 
    62936 File
    62937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62938 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    62939 out_of_bounds_list = True) 
    62940 File
    62941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62942 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    62943 subregion, step) 
    62944 File
    62945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62946 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    62947 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    62948 File
    62949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62950 packages/chimerax/map/volume.py", line 1243, in
    62951 matrix_indices_to_xyz_transform 
    62952 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    62953 File
    62954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62955 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    62956 r = self.subregion(step, subregion) 
    62957 File
    62958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62959 packages/chimerax/map/volume.py", line 1558, in subregion 
    62960 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62961 AttributeError: 'NoneType' object has no attribute 'size' 
    62962  
    62963 AttributeError: 'NoneType' object has no attribute 'size' 
    62964  
    62965 File
    62966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62967 packages/chimerax/map/volume.py", line 1558, in subregion 
    62968 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    62969  
    62970 See log for complete Python traceback. 
    62971  
    62972 Traceback (most recent call last): 
    62973 File
    62974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62975 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    62976 drew = self.draw_new_frame() 
    62977 File
    62978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62979 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    62980 surface.update_clip_caps(view) 
    62981 File
    62982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62983 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    62984 subdivision = settings.clipping_cap_subdivision) 
    62985 File
    62986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62987 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    62988 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    62989 File
    62990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62991 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    62992 cm.set_geometry(varray, narray, tarray) 
    62993 File
    62994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62995 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    62996 arv() 
    62997 File
    62998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    62999 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63000 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63001 File
    63002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63003 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63004 s.vertex_colors = self.vertex_colors(report_stats) 
    63005 File
    63006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63007 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63008 values, outside = self.volume_values() 
    63009 File
    63010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63011 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63012 return self.offset_values(v, n, tf) 
    63013 File
    63014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63015 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63016 values, outside = self.vertex_values(v, xf) 
    63017 File
    63018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63019 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63020 out_of_bounds_list = True) 
    63021 File
    63022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63023 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63024 subregion, step) 
    63025 File
    63026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63027 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63028 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63029 File
    63030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63031 packages/chimerax/map/volume.py", line 1243, in
    63032 matrix_indices_to_xyz_transform 
    63033 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63034 File
    63035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63036 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63037 r = self.subregion(step, subregion) 
    63038 File
    63039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63040 packages/chimerax/map/volume.py", line 1558, in subregion 
    63041 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63042 AttributeError: 'NoneType' object has no attribute 'size' 
    63043  
    63044 AttributeError: 'NoneType' object has no attribute 'size' 
    63045  
    63046 File
    63047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63048 packages/chimerax/map/volume.py", line 1558, in subregion 
    63049 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63050  
    63051 See log for complete Python traceback. 
    63052  
    63053 Traceback (most recent call last): 
    63054 File
    63055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63056 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63057 drew = self.draw_new_frame() 
    63058 File
    63059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63060 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63061 surface.update_clip_caps(view) 
    63062 File
    63063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63064 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63065 subdivision = settings.clipping_cap_subdivision) 
    63066 File
    63067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63068 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63069 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63070 File
    63071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63072 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63073 cm.set_geometry(varray, narray, tarray) 
    63074 File
    63075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63076 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63077 arv() 
    63078 File
    63079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63080 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63081 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63082 File
    63083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63084 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63085 s.vertex_colors = self.vertex_colors(report_stats) 
    63086 File
    63087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63088 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63089 values, outside = self.volume_values() 
    63090 File
    63091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63092 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63093 return self.offset_values(v, n, tf) 
    63094 File
    63095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63096 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63097 values, outside = self.vertex_values(v, xf) 
    63098 File
    63099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63100 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63101 out_of_bounds_list = True) 
    63102 File
    63103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63104 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63105 subregion, step) 
    63106 File
    63107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63108 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63109 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63110 File
    63111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63112 packages/chimerax/map/volume.py", line 1243, in
    63113 matrix_indices_to_xyz_transform 
    63114 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63115 File
    63116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63117 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63118 r = self.subregion(step, subregion) 
    63119 File
    63120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63121 packages/chimerax/map/volume.py", line 1558, in subregion 
    63122 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63123 AttributeError: 'NoneType' object has no attribute 'size' 
    63124  
    63125 AttributeError: 'NoneType' object has no attribute 'size' 
    63126  
    63127 File
    63128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63129 packages/chimerax/map/volume.py", line 1558, in subregion 
    63130 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63131  
    63132 See log for complete Python traceback. 
    63133  
    63134 Traceback (most recent call last): 
    63135 File
    63136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63137 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63138 drew = self.draw_new_frame() 
    63139 File
    63140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63141 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63142 surface.update_clip_caps(view) 
    63143 File
    63144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63145 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63146 subdivision = settings.clipping_cap_subdivision) 
    63147 File
    63148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63149 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63150 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63151 File
    63152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63153 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63154 cm.set_geometry(varray, narray, tarray) 
    63155 File
    63156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63157 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63158 arv() 
    63159 File
    63160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63161 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63162 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63163 File
    63164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63165 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63166 s.vertex_colors = self.vertex_colors(report_stats) 
    63167 File
    63168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63169 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63170 values, outside = self.volume_values() 
    63171 File
    63172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63173 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63174 return self.offset_values(v, n, tf) 
    63175 File
    63176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63177 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63178 values, outside = self.vertex_values(v, xf) 
    63179 File
    63180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63181 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63182 out_of_bounds_list = True) 
    63183 File
    63184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63185 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63186 subregion, step) 
    63187 File
    63188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63189 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63190 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63191 File
    63192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63193 packages/chimerax/map/volume.py", line 1243, in
    63194 matrix_indices_to_xyz_transform 
    63195 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63196 File
    63197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63198 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63199 r = self.subregion(step, subregion) 
    63200 File
    63201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63202 packages/chimerax/map/volume.py", line 1558, in subregion 
    63203 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63204 AttributeError: 'NoneType' object has no attribute 'size' 
    63205  
    63206 AttributeError: 'NoneType' object has no attribute 'size' 
    63207  
    63208 File
    63209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63210 packages/chimerax/map/volume.py", line 1558, in subregion 
    63211 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63212  
    63213 See log for complete Python traceback. 
    63214  
    63215 Traceback (most recent call last): 
    63216 File
    63217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63218 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63219 drew = self.draw_new_frame() 
    63220 File
    63221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63222 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63223 surface.update_clip_caps(view) 
    63224 File
    63225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63226 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63227 subdivision = settings.clipping_cap_subdivision) 
    63228 File
    63229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63230 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63231 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63232 File
    63233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63234 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63235 cm.set_geometry(varray, narray, tarray) 
    63236 File
    63237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63238 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63239 arv() 
    63240 File
    63241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63242 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63243 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63244 File
    63245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63246 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63247 s.vertex_colors = self.vertex_colors(report_stats) 
    63248 File
    63249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63250 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63251 values, outside = self.volume_values() 
    63252 File
    63253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63254 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63255 return self.offset_values(v, n, tf) 
    63256 File
    63257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63258 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63259 values, outside = self.vertex_values(v, xf) 
    63260 File
    63261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63262 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63263 out_of_bounds_list = True) 
    63264 File
    63265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63266 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63267 subregion, step) 
    63268 File
    63269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63270 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63271 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63272 File
    63273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63274 packages/chimerax/map/volume.py", line 1243, in
    63275 matrix_indices_to_xyz_transform 
    63276 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63277 File
    63278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63279 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63280 r = self.subregion(step, subregion) 
    63281 File
    63282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63283 packages/chimerax/map/volume.py", line 1558, in subregion 
    63284 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63285 AttributeError: 'NoneType' object has no attribute 'size' 
    63286  
    63287 AttributeError: 'NoneType' object has no attribute 'size' 
    63288  
    63289 File
    63290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63291 packages/chimerax/map/volume.py", line 1558, in subregion 
    63292 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63293  
    63294 See log for complete Python traceback. 
    63295  
    63296 Traceback (most recent call last): 
    63297 File
    63298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63299 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63300 drew = self.draw_new_frame() 
    63301 File
    63302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63303 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63304 surface.update_clip_caps(view) 
    63305 File
    63306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63307 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63308 subdivision = settings.clipping_cap_subdivision) 
    63309 File
    63310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63311 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63312 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63313 File
    63314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63315 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63316 cm.set_geometry(varray, narray, tarray) 
    63317 File
    63318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63319 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63320 arv() 
    63321 File
    63322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63323 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63324 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63325 File
    63326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63327 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63328 s.vertex_colors = self.vertex_colors(report_stats) 
    63329 File
    63330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63331 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63332 values, outside = self.volume_values() 
    63333 File
    63334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63335 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63336 return self.offset_values(v, n, tf) 
    63337 File
    63338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63339 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63340 values, outside = self.vertex_values(v, xf) 
    63341 File
    63342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63343 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63344 out_of_bounds_list = True) 
    63345 File
    63346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63347 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63348 subregion, step) 
    63349 File
    63350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63351 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63352 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63353 File
    63354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63355 packages/chimerax/map/volume.py", line 1243, in
    63356 matrix_indices_to_xyz_transform 
    63357 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63358 File
    63359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63360 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63361 r = self.subregion(step, subregion) 
    63362 File
    63363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63364 packages/chimerax/map/volume.py", line 1558, in subregion 
    63365 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63366 AttributeError: 'NoneType' object has no attribute 'size' 
    63367  
    63368 AttributeError: 'NoneType' object has no attribute 'size' 
    63369  
    63370 File
    63371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63372 packages/chimerax/map/volume.py", line 1558, in subregion 
    63373 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63374  
    63375 See log for complete Python traceback. 
    63376  
    63377 Traceback (most recent call last): 
    63378 File
    63379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63380 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63381 drew = self.draw_new_frame() 
    63382 File
    63383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63384 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63385 surface.update_clip_caps(view) 
    63386 File
    63387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63388 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63389 subdivision = settings.clipping_cap_subdivision) 
    63390 File
    63391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63392 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63393 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63394 File
    63395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63396 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63397 cm.set_geometry(varray, narray, tarray) 
    63398 File
    63399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63400 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63401 arv() 
    63402 File
    63403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63404 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63405 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63406 File
    63407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63408 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63409 s.vertex_colors = self.vertex_colors(report_stats) 
    63410 File
    63411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63412 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63413 values, outside = self.volume_values() 
    63414 File
    63415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63416 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63417 return self.offset_values(v, n, tf) 
    63418 File
    63419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63420 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63421 values, outside = self.vertex_values(v, xf) 
    63422 File
    63423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63424 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63425 out_of_bounds_list = True) 
    63426 File
    63427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63428 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63429 subregion, step) 
    63430 File
    63431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63432 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63433 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63434 File
    63435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63436 packages/chimerax/map/volume.py", line 1243, in
    63437 matrix_indices_to_xyz_transform 
    63438 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63439 File
    63440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63441 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63442 r = self.subregion(step, subregion) 
    63443 File
    63444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63445 packages/chimerax/map/volume.py", line 1558, in subregion 
    63446 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63447 AttributeError: 'NoneType' object has no attribute 'size' 
    63448  
    63449 AttributeError: 'NoneType' object has no attribute 'size' 
    63450  
    63451 File
    63452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63453 packages/chimerax/map/volume.py", line 1558, in subregion 
    63454 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63455  
    63456 See log for complete Python traceback. 
    63457  
    63458 Traceback (most recent call last): 
    63459 File
    63460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63461 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63462 drew = self.draw_new_frame() 
    63463 File
    63464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63465 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63466 surface.update_clip_caps(view) 
    63467 File
    63468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63469 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63470 subdivision = settings.clipping_cap_subdivision) 
    63471 File
    63472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63473 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63474 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63475 File
    63476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63477 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63478 cm.set_geometry(varray, narray, tarray) 
    63479 File
    63480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63481 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63482 arv() 
    63483 File
    63484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63485 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63486 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63487 File
    63488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63489 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63490 s.vertex_colors = self.vertex_colors(report_stats) 
    63491 File
    63492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63493 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63494 values, outside = self.volume_values() 
    63495 File
    63496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63497 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63498 return self.offset_values(v, n, tf) 
    63499 File
    63500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63501 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63502 values, outside = self.vertex_values(v, xf) 
    63503 File
    63504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63505 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63506 out_of_bounds_list = True) 
    63507 File
    63508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63509 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63510 subregion, step) 
    63511 File
    63512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63513 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63514 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63515 File
    63516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63517 packages/chimerax/map/volume.py", line 1243, in
    63518 matrix_indices_to_xyz_transform 
    63519 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63520 File
    63521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63522 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63523 r = self.subregion(step, subregion) 
    63524 File
    63525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63526 packages/chimerax/map/volume.py", line 1558, in subregion 
    63527 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63528 AttributeError: 'NoneType' object has no attribute 'size' 
    63529  
    63530 AttributeError: 'NoneType' object has no attribute 'size' 
    63531  
    63532 File
    63533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63534 packages/chimerax/map/volume.py", line 1558, in subregion 
    63535 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63536  
    63537 See log for complete Python traceback. 
    63538  
    63539 Traceback (most recent call last): 
    63540 File
    63541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63542 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63543 drew = self.draw_new_frame() 
    63544 File
    63545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63546 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63547 surface.update_clip_caps(view) 
    63548 File
    63549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63550 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63551 subdivision = settings.clipping_cap_subdivision) 
    63552 File
    63553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63554 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63555 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63556 File
    63557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63558 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63559 cm.set_geometry(varray, narray, tarray) 
    63560 File
    63561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63562 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63563 arv() 
    63564 File
    63565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63566 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63567 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63568 File
    63569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63570 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63571 s.vertex_colors = self.vertex_colors(report_stats) 
    63572 File
    63573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63574 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63575 values, outside = self.volume_values() 
    63576 File
    63577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63578 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63579 return self.offset_values(v, n, tf) 
    63580 File
    63581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63582 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63583 values, outside = self.vertex_values(v, xf) 
    63584 File
    63585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63586 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63587 out_of_bounds_list = True) 
    63588 File
    63589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63590 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63591 subregion, step) 
    63592 File
    63593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63594 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63595 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63596 File
    63597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63598 packages/chimerax/map/volume.py", line 1243, in
    63599 matrix_indices_to_xyz_transform 
    63600 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63601 File
    63602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63603 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63604 r = self.subregion(step, subregion) 
    63605 File
    63606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63607 packages/chimerax/map/volume.py", line 1558, in subregion 
    63608 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63609 AttributeError: 'NoneType' object has no attribute 'size' 
    63610  
    63611 AttributeError: 'NoneType' object has no attribute 'size' 
    63612  
    63613 File
    63614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63615 packages/chimerax/map/volume.py", line 1558, in subregion 
    63616 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63617  
    63618 See log for complete Python traceback. 
    63619  
    63620 Traceback (most recent call last): 
    63621 File
    63622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63623 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63624 drew = self.draw_new_frame() 
    63625 File
    63626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63627 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63628 surface.update_clip_caps(view) 
    63629 File
    63630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63631 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63632 subdivision = settings.clipping_cap_subdivision) 
    63633 File
    63634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63635 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63636 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63637 File
    63638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63639 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63640 cm.set_geometry(varray, narray, tarray) 
    63641 File
    63642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63643 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63644 arv() 
    63645 File
    63646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63647 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63648 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63649 File
    63650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63651 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63652 s.vertex_colors = self.vertex_colors(report_stats) 
    63653 File
    63654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63655 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63656 values, outside = self.volume_values() 
    63657 File
    63658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63659 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63660 return self.offset_values(v, n, tf) 
    63661 File
    63662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63663 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63664 values, outside = self.vertex_values(v, xf) 
    63665 File
    63666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63667 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63668 out_of_bounds_list = True) 
    63669 File
    63670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63671 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63672 subregion, step) 
    63673 File
    63674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63675 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63676 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63677 File
    63678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63679 packages/chimerax/map/volume.py", line 1243, in
    63680 matrix_indices_to_xyz_transform 
    63681 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63682 File
    63683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63684 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63685 r = self.subregion(step, subregion) 
    63686 File
    63687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63688 packages/chimerax/map/volume.py", line 1558, in subregion 
    63689 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63690 AttributeError: 'NoneType' object has no attribute 'size' 
    63691  
    63692 AttributeError: 'NoneType' object has no attribute 'size' 
    63693  
    63694 File
    63695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63696 packages/chimerax/map/volume.py", line 1558, in subregion 
    63697 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63698  
    63699 See log for complete Python traceback. 
    63700  
    63701 Traceback (most recent call last): 
    63702 File
    63703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63704 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63705 drew = self.draw_new_frame() 
    63706 File
    63707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63708 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63709 surface.update_clip_caps(view) 
    63710 File
    63711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63712 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63713 subdivision = settings.clipping_cap_subdivision) 
    63714 File
    63715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63716 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63717 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63718 File
    63719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63720 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63721 cm.set_geometry(varray, narray, tarray) 
    63722 File
    63723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63724 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63725 arv() 
    63726 File
    63727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63728 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63729 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63730 File
    63731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63732 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63733 s.vertex_colors = self.vertex_colors(report_stats) 
    63734 File
    63735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63736 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63737 values, outside = self.volume_values() 
    63738 File
    63739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63740 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63741 return self.offset_values(v, n, tf) 
    63742 File
    63743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63744 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63745 values, outside = self.vertex_values(v, xf) 
    63746 File
    63747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63748 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63749 out_of_bounds_list = True) 
    63750 File
    63751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63752 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63753 subregion, step) 
    63754 File
    63755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63756 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63757 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63758 File
    63759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63760 packages/chimerax/map/volume.py", line 1243, in
    63761 matrix_indices_to_xyz_transform 
    63762 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63763 File
    63764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63765 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63766 r = self.subregion(step, subregion) 
    63767 File
    63768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63769 packages/chimerax/map/volume.py", line 1558, in subregion 
    63770 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63771 AttributeError: 'NoneType' object has no attribute 'size' 
    63772  
    63773 AttributeError: 'NoneType' object has no attribute 'size' 
    63774  
    63775 File
    63776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63777 packages/chimerax/map/volume.py", line 1558, in subregion 
    63778 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63779  
    63780 See log for complete Python traceback. 
    63781  
    63782 Traceback (most recent call last): 
    63783 File
    63784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63785 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63786 drew = self.draw_new_frame() 
    63787 File
    63788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63789 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63790 surface.update_clip_caps(view) 
    63791 File
    63792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63793 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63794 subdivision = settings.clipping_cap_subdivision) 
    63795 File
    63796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63797 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63798 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63799 File
    63800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63801 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63802 cm.set_geometry(varray, narray, tarray) 
    63803 File
    63804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63805 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63806 arv() 
    63807 File
    63808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63809 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63810 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63811 File
    63812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63813 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63814 s.vertex_colors = self.vertex_colors(report_stats) 
    63815 File
    63816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63817 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63818 values, outside = self.volume_values() 
    63819 File
    63820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63821 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63822 return self.offset_values(v, n, tf) 
    63823 File
    63824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63825 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63826 values, outside = self.vertex_values(v, xf) 
    63827 File
    63828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63829 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63830 out_of_bounds_list = True) 
    63831 File
    63832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63833 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63834 subregion, step) 
    63835 File
    63836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63837 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63838 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63839 File
    63840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63841 packages/chimerax/map/volume.py", line 1243, in
    63842 matrix_indices_to_xyz_transform 
    63843 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63844 File
    63845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63846 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63847 r = self.subregion(step, subregion) 
    63848 File
    63849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63850 packages/chimerax/map/volume.py", line 1558, in subregion 
    63851 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63852 AttributeError: 'NoneType' object has no attribute 'size' 
    63853  
    63854 AttributeError: 'NoneType' object has no attribute 'size' 
    63855  
    63856 File
    63857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63858 packages/chimerax/map/volume.py", line 1558, in subregion 
    63859 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63860  
    63861 See log for complete Python traceback. 
    63862  
    63863 Traceback (most recent call last): 
    63864 File
    63865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63866 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63867 drew = self.draw_new_frame() 
    63868 File
    63869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63870 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63871 surface.update_clip_caps(view) 
    63872 File
    63873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63874 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63875 subdivision = settings.clipping_cap_subdivision) 
    63876 File
    63877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63878 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63879 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63880 File
    63881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63882 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63883 cm.set_geometry(varray, narray, tarray) 
    63884 File
    63885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63886 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63887 arv() 
    63888 File
    63889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63890 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63891 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63892 File
    63893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63894 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63895 s.vertex_colors = self.vertex_colors(report_stats) 
    63896 File
    63897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63898 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63899 values, outside = self.volume_values() 
    63900 File
    63901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63902 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63903 return self.offset_values(v, n, tf) 
    63904 File
    63905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63906 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63907 values, outside = self.vertex_values(v, xf) 
    63908 File
    63909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63910 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63911 out_of_bounds_list = True) 
    63912 File
    63913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63914 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63915 subregion, step) 
    63916 File
    63917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63918 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    63919 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    63920 File
    63921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63922 packages/chimerax/map/volume.py", line 1243, in
    63923 matrix_indices_to_xyz_transform 
    63924 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    63925 File
    63926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63927 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    63928 r = self.subregion(step, subregion) 
    63929 File
    63930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63931 packages/chimerax/map/volume.py", line 1558, in subregion 
    63932 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63933 AttributeError: 'NoneType' object has no attribute 'size' 
    63934  
    63935 AttributeError: 'NoneType' object has no attribute 'size' 
    63936  
    63937 File
    63938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63939 packages/chimerax/map/volume.py", line 1558, in subregion 
    63940 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    63941  
    63942 See log for complete Python traceback. 
    63943  
    63944 Traceback (most recent call last): 
    63945 File
    63946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63947 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    63948 drew = self.draw_new_frame() 
    63949 File
    63950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63951 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    63952 surface.update_clip_caps(view) 
    63953 File
    63954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63955 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    63956 subdivision = settings.clipping_cap_subdivision) 
    63957 File
    63958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63959 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    63960 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    63961 File
    63962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63963 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    63964 cm.set_geometry(varray, narray, tarray) 
    63965 File
    63966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63967 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    63968 arv() 
    63969 File
    63970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63971 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    63972 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    63973 File
    63974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63975 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    63976 s.vertex_colors = self.vertex_colors(report_stats) 
    63977 File
    63978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63979 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    63980 values, outside = self.volume_values() 
    63981 File
    63982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63983 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    63984 return self.offset_values(v, n, tf) 
    63985 File
    63986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63987 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    63988 values, outside = self.vertex_values(v, xf) 
    63989 File
    63990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63991 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    63992 out_of_bounds_list = True) 
    63993 File
    63994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63995 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    63996 subregion, step) 
    63997 File
    63998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    63999 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64000 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64001 File
    64002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64003 packages/chimerax/map/volume.py", line 1243, in
    64004 matrix_indices_to_xyz_transform 
    64005 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64006 File
    64007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64008 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64009 r = self.subregion(step, subregion) 
    64010 File
    64011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64012 packages/chimerax/map/volume.py", line 1558, in subregion 
    64013 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64014 AttributeError: 'NoneType' object has no attribute 'size' 
    64015  
    64016 AttributeError: 'NoneType' object has no attribute 'size' 
    64017  
    64018 File
    64019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64020 packages/chimerax/map/volume.py", line 1558, in subregion 
    64021 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64022  
    64023 See log for complete Python traceback. 
    64024  
    64025 Traceback (most recent call last): 
    64026 File
    64027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64028 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64029 drew = self.draw_new_frame() 
    64030 File
    64031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64032 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64033 surface.update_clip_caps(view) 
    64034 File
    64035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64036 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64037 subdivision = settings.clipping_cap_subdivision) 
    64038 File
    64039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64040 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64041 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64042 File
    64043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64044 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64045 cm.set_geometry(varray, narray, tarray) 
    64046 File
    64047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64048 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64049 arv() 
    64050 File
    64051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64052 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64053 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64054 File
    64055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64056 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64057 s.vertex_colors = self.vertex_colors(report_stats) 
    64058 File
    64059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64060 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64061 values, outside = self.volume_values() 
    64062 File
    64063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64064 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64065 return self.offset_values(v, n, tf) 
    64066 File
    64067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64068 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64069 values, outside = self.vertex_values(v, xf) 
    64070 File
    64071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64072 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64073 out_of_bounds_list = True) 
    64074 File
    64075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64076 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64077 subregion, step) 
    64078 File
    64079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64080 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64081 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64082 File
    64083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64084 packages/chimerax/map/volume.py", line 1243, in
    64085 matrix_indices_to_xyz_transform 
    64086 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64087 File
    64088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64089 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64090 r = self.subregion(step, subregion) 
    64091 File
    64092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64093 packages/chimerax/map/volume.py", line 1558, in subregion 
    64094 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64095 AttributeError: 'NoneType' object has no attribute 'size' 
    64096  
    64097 AttributeError: 'NoneType' object has no attribute 'size' 
    64098  
    64099 File
    64100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64101 packages/chimerax/map/volume.py", line 1558, in subregion 
    64102 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64103  
    64104 See log for complete Python traceback. 
    64105  
    64106 Traceback (most recent call last): 
    64107 File
    64108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64109 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64110 drew = self.draw_new_frame() 
    64111 File
    64112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64113 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64114 surface.update_clip_caps(view) 
    64115 File
    64116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64117 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64118 subdivision = settings.clipping_cap_subdivision) 
    64119 File
    64120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64121 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64122 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64123 File
    64124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64125 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64126 cm.set_geometry(varray, narray, tarray) 
    64127 File
    64128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64129 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64130 arv() 
    64131 File
    64132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64133 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64134 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64135 File
    64136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64137 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64138 s.vertex_colors = self.vertex_colors(report_stats) 
    64139 File
    64140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64141 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64142 values, outside = self.volume_values() 
    64143 File
    64144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64145 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64146 return self.offset_values(v, n, tf) 
    64147 File
    64148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64149 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64150 values, outside = self.vertex_values(v, xf) 
    64151 File
    64152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64153 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64154 out_of_bounds_list = True) 
    64155 File
    64156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64157 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64158 subregion, step) 
    64159 File
    64160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64161 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64162 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64163 File
    64164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64165 packages/chimerax/map/volume.py", line 1243, in
    64166 matrix_indices_to_xyz_transform 
    64167 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64168 File
    64169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64170 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64171 r = self.subregion(step, subregion) 
    64172 File
    64173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64174 packages/chimerax/map/volume.py", line 1558, in subregion 
    64175 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64176 AttributeError: 'NoneType' object has no attribute 'size' 
    64177  
    64178 AttributeError: 'NoneType' object has no attribute 'size' 
    64179  
    64180 File
    64181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64182 packages/chimerax/map/volume.py", line 1558, in subregion 
    64183 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64184  
    64185 See log for complete Python traceback. 
    64186  
    64187 Traceback (most recent call last): 
    64188 File
    64189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64190 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64191 drew = self.draw_new_frame() 
    64192 File
    64193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64194 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64195 surface.update_clip_caps(view) 
    64196 File
    64197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64198 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64199 subdivision = settings.clipping_cap_subdivision) 
    64200 File
    64201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64202 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64203 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64204 File
    64205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64206 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64207 cm.set_geometry(varray, narray, tarray) 
    64208 File
    64209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64210 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64211 arv() 
    64212 File
    64213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64214 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64215 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64216 File
    64217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64218 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64219 s.vertex_colors = self.vertex_colors(report_stats) 
    64220 File
    64221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64222 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64223 values, outside = self.volume_values() 
    64224 File
    64225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64226 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64227 return self.offset_values(v, n, tf) 
    64228 File
    64229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64230 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64231 values, outside = self.vertex_values(v, xf) 
    64232 File
    64233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64234 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64235 out_of_bounds_list = True) 
    64236 File
    64237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64238 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64239 subregion, step) 
    64240 File
    64241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64242 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64243 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64244 File
    64245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64246 packages/chimerax/map/volume.py", line 1243, in
    64247 matrix_indices_to_xyz_transform 
    64248 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64249 File
    64250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64251 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64252 r = self.subregion(step, subregion) 
    64253 File
    64254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64255 packages/chimerax/map/volume.py", line 1558, in subregion 
    64256 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64257 AttributeError: 'NoneType' object has no attribute 'size' 
    64258  
    64259 AttributeError: 'NoneType' object has no attribute 'size' 
    64260  
    64261 File
    64262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64263 packages/chimerax/map/volume.py", line 1558, in subregion 
    64264 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64265  
    64266 See log for complete Python traceback. 
    64267  
    64268 Traceback (most recent call last): 
    64269 File
    64270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64271 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64272 drew = self.draw_new_frame() 
    64273 File
    64274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64275 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64276 surface.update_clip_caps(view) 
    64277 File
    64278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64279 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64280 subdivision = settings.clipping_cap_subdivision) 
    64281 File
    64282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64283 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64284 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64285 File
    64286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64287 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64288 cm.set_geometry(varray, narray, tarray) 
    64289 File
    64290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64291 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64292 arv() 
    64293 File
    64294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64295 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64296 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64297 File
    64298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64299 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64300 s.vertex_colors = self.vertex_colors(report_stats) 
    64301 File
    64302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64303 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64304 values, outside = self.volume_values() 
    64305 File
    64306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64307 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64308 return self.offset_values(v, n, tf) 
    64309 File
    64310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64311 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64312 values, outside = self.vertex_values(v, xf) 
    64313 File
    64314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64315 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64316 out_of_bounds_list = True) 
    64317 File
    64318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64319 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64320 subregion, step) 
    64321 File
    64322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64323 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64324 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64325 File
    64326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64327 packages/chimerax/map/volume.py", line 1243, in
    64328 matrix_indices_to_xyz_transform 
    64329 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64330 File
    64331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64332 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64333 r = self.subregion(step, subregion) 
    64334 File
    64335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64336 packages/chimerax/map/volume.py", line 1558, in subregion 
    64337 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64338 AttributeError: 'NoneType' object has no attribute 'size' 
    64339  
    64340 AttributeError: 'NoneType' object has no attribute 'size' 
    64341  
    64342 File
    64343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64344 packages/chimerax/map/volume.py", line 1558, in subregion 
    64345 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64346  
    64347 See log for complete Python traceback. 
    64348  
    64349 Traceback (most recent call last): 
    64350 File
    64351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64352 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64353 drew = self.draw_new_frame() 
    64354 File
    64355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64356 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64357 surface.update_clip_caps(view) 
    64358 File
    64359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64360 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64361 subdivision = settings.clipping_cap_subdivision) 
    64362 File
    64363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64364 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64365 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64366 File
    64367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64368 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64369 cm.set_geometry(varray, narray, tarray) 
    64370 File
    64371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64372 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64373 arv() 
    64374 File
    64375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64376 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64377 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64378 File
    64379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64380 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64381 s.vertex_colors = self.vertex_colors(report_stats) 
    64382 File
    64383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64384 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64385 values, outside = self.volume_values() 
    64386 File
    64387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64388 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64389 return self.offset_values(v, n, tf) 
    64390 File
    64391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64392 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64393 values, outside = self.vertex_values(v, xf) 
    64394 File
    64395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64396 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64397 out_of_bounds_list = True) 
    64398 File
    64399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64400 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64401 subregion, step) 
    64402 File
    64403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64404 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64405 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64406 File
    64407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64408 packages/chimerax/map/volume.py", line 1243, in
    64409 matrix_indices_to_xyz_transform 
    64410 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64411 File
    64412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64413 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64414 r = self.subregion(step, subregion) 
    64415 File
    64416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64417 packages/chimerax/map/volume.py", line 1558, in subregion 
    64418 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64419 AttributeError: 'NoneType' object has no attribute 'size' 
    64420  
    64421 AttributeError: 'NoneType' object has no attribute 'size' 
    64422  
    64423 File
    64424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64425 packages/chimerax/map/volume.py", line 1558, in subregion 
    64426 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64427  
    64428 See log for complete Python traceback. 
    64429  
    64430 Traceback (most recent call last): 
    64431 File
    64432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64433 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64434 drew = self.draw_new_frame() 
    64435 File
    64436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64437 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64438 surface.update_clip_caps(view) 
    64439 File
    64440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64441 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64442 subdivision = settings.clipping_cap_subdivision) 
    64443 File
    64444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64445 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64446 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64447 File
    64448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64449 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64450 cm.set_geometry(varray, narray, tarray) 
    64451 File
    64452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64453 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64454 arv() 
    64455 File
    64456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64457 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64458 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64459 File
    64460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64461 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64462 s.vertex_colors = self.vertex_colors(report_stats) 
    64463 File
    64464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64465 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64466 values, outside = self.volume_values() 
    64467 File
    64468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64469 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64470 return self.offset_values(v, n, tf) 
    64471 File
    64472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64473 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64474 values, outside = self.vertex_values(v, xf) 
    64475 File
    64476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64477 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64478 out_of_bounds_list = True) 
    64479 File
    64480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64481 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64482 subregion, step) 
    64483 File
    64484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64485 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64486 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64487 File
    64488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64489 packages/chimerax/map/volume.py", line 1243, in
    64490 matrix_indices_to_xyz_transform 
    64491 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64492 File
    64493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64494 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64495 r = self.subregion(step, subregion) 
    64496 File
    64497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64498 packages/chimerax/map/volume.py", line 1558, in subregion 
    64499 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64500 AttributeError: 'NoneType' object has no attribute 'size' 
    64501  
    64502 AttributeError: 'NoneType' object has no attribute 'size' 
    64503  
    64504 File
    64505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64506 packages/chimerax/map/volume.py", line 1558, in subregion 
    64507 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64508  
    64509 See log for complete Python traceback. 
    64510  
    64511 Traceback (most recent call last): 
    64512 File
    64513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64514 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64515 drew = self.draw_new_frame() 
    64516 File
    64517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64518 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64519 surface.update_clip_caps(view) 
    64520 File
    64521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64522 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64523 subdivision = settings.clipping_cap_subdivision) 
    64524 File
    64525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64526 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64527 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64528 File
    64529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64530 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64531 cm.set_geometry(varray, narray, tarray) 
    64532 File
    64533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64534 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64535 arv() 
    64536 File
    64537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64538 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64539 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64540 File
    64541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64542 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64543 s.vertex_colors = self.vertex_colors(report_stats) 
    64544 File
    64545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64546 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64547 values, outside = self.volume_values() 
    64548 File
    64549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64550 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64551 return self.offset_values(v, n, tf) 
    64552 File
    64553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64554 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64555 values, outside = self.vertex_values(v, xf) 
    64556 File
    64557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64558 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64559 out_of_bounds_list = True) 
    64560 File
    64561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64562 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64563 subregion, step) 
    64564 File
    64565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64566 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64567 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64568 File
    64569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64570 packages/chimerax/map/volume.py", line 1243, in
    64571 matrix_indices_to_xyz_transform 
    64572 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64573 File
    64574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64575 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64576 r = self.subregion(step, subregion) 
    64577 File
    64578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64579 packages/chimerax/map/volume.py", line 1558, in subregion 
    64580 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64581 AttributeError: 'NoneType' object has no attribute 'size' 
    64582  
    64583 AttributeError: 'NoneType' object has no attribute 'size' 
    64584  
    64585 File
    64586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64587 packages/chimerax/map/volume.py", line 1558, in subregion 
    64588 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64589  
    64590 See log for complete Python traceback. 
    64591  
    64592 Traceback (most recent call last): 
    64593 File
    64594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64595 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64596 drew = self.draw_new_frame() 
    64597 File
    64598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64599 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64600 surface.update_clip_caps(view) 
    64601 File
    64602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64603 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64604 subdivision = settings.clipping_cap_subdivision) 
    64605 File
    64606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64607 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64608 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64609 File
    64610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64611 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64612 cm.set_geometry(varray, narray, tarray) 
    64613 File
    64614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64615 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64616 arv() 
    64617 File
    64618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64619 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64620 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64621 File
    64622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64623 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64624 s.vertex_colors = self.vertex_colors(report_stats) 
    64625 File
    64626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64627 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64628 values, outside = self.volume_values() 
    64629 File
    64630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64631 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64632 return self.offset_values(v, n, tf) 
    64633 File
    64634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64635 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64636 values, outside = self.vertex_values(v, xf) 
    64637 File
    64638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64639 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64640 out_of_bounds_list = True) 
    64641 File
    64642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64643 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64644 subregion, step) 
    64645 File
    64646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64647 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64648 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64649 File
    64650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64651 packages/chimerax/map/volume.py", line 1243, in
    64652 matrix_indices_to_xyz_transform 
    64653 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64654 File
    64655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64656 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64657 r = self.subregion(step, subregion) 
    64658 File
    64659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64660 packages/chimerax/map/volume.py", line 1558, in subregion 
    64661 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64662 AttributeError: 'NoneType' object has no attribute 'size' 
    64663  
    64664 AttributeError: 'NoneType' object has no attribute 'size' 
    64665  
    64666 File
    64667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64668 packages/chimerax/map/volume.py", line 1558, in subregion 
    64669 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64670  
    64671 See log for complete Python traceback. 
    64672  
    64673 Traceback (most recent call last): 
    64674 File
    64675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64676 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64677 drew = self.draw_new_frame() 
    64678 File
    64679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64680 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64681 surface.update_clip_caps(view) 
    64682 File
    64683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64684 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64685 subdivision = settings.clipping_cap_subdivision) 
    64686 File
    64687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64688 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64689 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64690 File
    64691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64692 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64693 cm.set_geometry(varray, narray, tarray) 
    64694 File
    64695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64696 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64697 arv() 
    64698 File
    64699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64700 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64701 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64702 File
    64703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64704 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64705 s.vertex_colors = self.vertex_colors(report_stats) 
    64706 File
    64707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64708 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64709 values, outside = self.volume_values() 
    64710 File
    64711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64712 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64713 return self.offset_values(v, n, tf) 
    64714 File
    64715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64716 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64717 values, outside = self.vertex_values(v, xf) 
    64718 File
    64719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64720 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64721 out_of_bounds_list = True) 
    64722 File
    64723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64724 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64725 subregion, step) 
    64726 File
    64727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64728 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64729 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64730 File
    64731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64732 packages/chimerax/map/volume.py", line 1243, in
    64733 matrix_indices_to_xyz_transform 
    64734 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64735 File
    64736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64737 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64738 r = self.subregion(step, subregion) 
    64739 File
    64740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64741 packages/chimerax/map/volume.py", line 1558, in subregion 
    64742 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64743 AttributeError: 'NoneType' object has no attribute 'size' 
    64744  
    64745 AttributeError: 'NoneType' object has no attribute 'size' 
    64746  
    64747 File
    64748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64749 packages/chimerax/map/volume.py", line 1558, in subregion 
    64750 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64751  
    64752 See log for complete Python traceback. 
    64753  
    64754 Traceback (most recent call last): 
    64755 File
    64756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64757 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64758 drew = self.draw_new_frame() 
    64759 File
    64760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64761 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64762 surface.update_clip_caps(view) 
    64763 File
    64764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64765 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64766 subdivision = settings.clipping_cap_subdivision) 
    64767 File
    64768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64769 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64770 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64771 File
    64772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64773 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64774 cm.set_geometry(varray, narray, tarray) 
    64775 File
    64776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64777 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64778 arv() 
    64779 File
    64780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64781 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64782 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64783 File
    64784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64785 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64786 s.vertex_colors = self.vertex_colors(report_stats) 
    64787 File
    64788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64789 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64790 values, outside = self.volume_values() 
    64791 File
    64792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64793 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64794 return self.offset_values(v, n, tf) 
    64795 File
    64796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64797 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64798 values, outside = self.vertex_values(v, xf) 
    64799 File
    64800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64801 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64802 out_of_bounds_list = True) 
    64803 File
    64804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64805 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64806 subregion, step) 
    64807 File
    64808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64809 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64810 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64811 File
    64812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64813 packages/chimerax/map/volume.py", line 1243, in
    64814 matrix_indices_to_xyz_transform 
    64815 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64816 File
    64817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64818 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64819 r = self.subregion(step, subregion) 
    64820 File
    64821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64822 packages/chimerax/map/volume.py", line 1558, in subregion 
    64823 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64824 AttributeError: 'NoneType' object has no attribute 'size' 
    64825  
    64826 AttributeError: 'NoneType' object has no attribute 'size' 
    64827  
    64828 File
    64829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64830 packages/chimerax/map/volume.py", line 1558, in subregion 
    64831 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64832  
    64833 See log for complete Python traceback. 
    64834  
    64835 Traceback (most recent call last): 
    64836 File
    64837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64838 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64839 drew = self.draw_new_frame() 
    64840 File
    64841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64842 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64843 surface.update_clip_caps(view) 
    64844 File
    64845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64846 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64847 subdivision = settings.clipping_cap_subdivision) 
    64848 File
    64849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64850 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64851 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64852 File
    64853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64854 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64855 cm.set_geometry(varray, narray, tarray) 
    64856 File
    64857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64858 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64859 arv() 
    64860 File
    64861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64862 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64863 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64864 File
    64865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64866 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64867 s.vertex_colors = self.vertex_colors(report_stats) 
    64868 File
    64869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64870 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64871 values, outside = self.volume_values() 
    64872 File
    64873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64874 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64875 return self.offset_values(v, n, tf) 
    64876 File
    64877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64878 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64879 values, outside = self.vertex_values(v, xf) 
    64880 File
    64881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64882 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64883 out_of_bounds_list = True) 
    64884 File
    64885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64886 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64887 subregion, step) 
    64888 File
    64889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64890 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64891 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64892 File
    64893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64894 packages/chimerax/map/volume.py", line 1243, in
    64895 matrix_indices_to_xyz_transform 
    64896 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64897 File
    64898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64899 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64900 r = self.subregion(step, subregion) 
    64901 File
    64902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64903 packages/chimerax/map/volume.py", line 1558, in subregion 
    64904 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64905 AttributeError: 'NoneType' object has no attribute 'size' 
    64906  
    64907 AttributeError: 'NoneType' object has no attribute 'size' 
    64908  
    64909 File
    64910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64911 packages/chimerax/map/volume.py", line 1558, in subregion 
    64912 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64913  
    64914 See log for complete Python traceback. 
    64915  
    64916 Traceback (most recent call last): 
    64917 File
    64918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64919 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    64920 drew = self.draw_new_frame() 
    64921 File
    64922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64923 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    64924 surface.update_clip_caps(view) 
    64925 File
    64926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64927 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    64928 subdivision = settings.clipping_cap_subdivision) 
    64929 File
    64930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64931 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    64932 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    64933 File
    64934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64935 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    64936 cm.set_geometry(varray, narray, tarray) 
    64937 File
    64938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64939 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    64940 arv() 
    64941 File
    64942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64943 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    64944 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    64945 File
    64946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64947 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    64948 s.vertex_colors = self.vertex_colors(report_stats) 
    64949 File
    64950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64951 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    64952 values, outside = self.volume_values() 
    64953 File
    64954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64955 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    64956 return self.offset_values(v, n, tf) 
    64957 File
    64958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64959 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    64960 values, outside = self.vertex_values(v, xf) 
    64961 File
    64962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64963 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    64964 out_of_bounds_list = True) 
    64965 File
    64966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64967 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    64968 subregion, step) 
    64969 File
    64970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64971 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    64972 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    64973 File
    64974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64975 packages/chimerax/map/volume.py", line 1243, in
    64976 matrix_indices_to_xyz_transform 
    64977 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    64978 File
    64979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64980 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    64981 r = self.subregion(step, subregion) 
    64982 File
    64983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64984 packages/chimerax/map/volume.py", line 1558, in subregion 
    64985 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64986 AttributeError: 'NoneType' object has no attribute 'size' 
    64987  
    64988 AttributeError: 'NoneType' object has no attribute 'size' 
    64989  
    64990 File
    64991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    64992 packages/chimerax/map/volume.py", line 1558, in subregion 
    64993 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    64994  
    64995 See log for complete Python traceback. 
    64996  
    64997 Traceback (most recent call last): 
    64998 File
    64999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65000 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65001 drew = self.draw_new_frame() 
    65002 File
    65003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65004 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65005 surface.update_clip_caps(view) 
    65006 File
    65007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65008 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65009 subdivision = settings.clipping_cap_subdivision) 
    65010 File
    65011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65012 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65013 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65014 File
    65015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65016 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65017 cm.set_geometry(varray, narray, tarray) 
    65018 File
    65019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65020 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65021 arv() 
    65022 File
    65023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65024 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65025 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65026 File
    65027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65028 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65029 s.vertex_colors = self.vertex_colors(report_stats) 
    65030 File
    65031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65032 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65033 values, outside = self.volume_values() 
    65034 File
    65035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65036 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65037 return self.offset_values(v, n, tf) 
    65038 File
    65039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65040 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65041 values, outside = self.vertex_values(v, xf) 
    65042 File
    65043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65044 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65045 out_of_bounds_list = True) 
    65046 File
    65047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65048 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65049 subregion, step) 
    65050 File
    65051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65052 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65053 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65054 File
    65055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65056 packages/chimerax/map/volume.py", line 1243, in
    65057 matrix_indices_to_xyz_transform 
    65058 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65059 File
    65060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65061 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65062 r = self.subregion(step, subregion) 
    65063 File
    65064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65065 packages/chimerax/map/volume.py", line 1558, in subregion 
    65066 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65067 AttributeError: 'NoneType' object has no attribute 'size' 
    65068  
    65069 AttributeError: 'NoneType' object has no attribute 'size' 
    65070  
    65071 File
    65072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65073 packages/chimerax/map/volume.py", line 1558, in subregion 
    65074 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65075  
    65076 See log for complete Python traceback. 
    65077  
    65078 Traceback (most recent call last): 
    65079 File
    65080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65081 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65082 drew = self.draw_new_frame() 
    65083 File
    65084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65085 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65086 surface.update_clip_caps(view) 
    65087 File
    65088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65089 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65090 subdivision = settings.clipping_cap_subdivision) 
    65091 File
    65092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65093 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65094 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65095 File
    65096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65097 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65098 cm.set_geometry(varray, narray, tarray) 
    65099 File
    65100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65101 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65102 arv() 
    65103 File
    65104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65105 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65106 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65107 File
    65108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65109 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65110 s.vertex_colors = self.vertex_colors(report_stats) 
    65111 File
    65112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65113 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65114 values, outside = self.volume_values() 
    65115 File
    65116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65117 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65118 return self.offset_values(v, n, tf) 
    65119 File
    65120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65121 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65122 values, outside = self.vertex_values(v, xf) 
    65123 File
    65124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65125 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65126 out_of_bounds_list = True) 
    65127 File
    65128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65129 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65130 subregion, step) 
    65131 File
    65132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65133 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65134 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65135 File
    65136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65137 packages/chimerax/map/volume.py", line 1243, in
    65138 matrix_indices_to_xyz_transform 
    65139 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65140 File
    65141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65142 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65143 r = self.subregion(step, subregion) 
    65144 File
    65145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65146 packages/chimerax/map/volume.py", line 1558, in subregion 
    65147 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65148 AttributeError: 'NoneType' object has no attribute 'size' 
    65149  
    65150 AttributeError: 'NoneType' object has no attribute 'size' 
    65151  
    65152 File
    65153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65154 packages/chimerax/map/volume.py", line 1558, in subregion 
    65155 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65156  
    65157 See log for complete Python traceback. 
    65158  
    65159 Traceback (most recent call last): 
    65160 File
    65161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65162 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65163 drew = self.draw_new_frame() 
    65164 File
    65165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65166 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65167 surface.update_clip_caps(view) 
    65168 File
    65169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65170 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65171 subdivision = settings.clipping_cap_subdivision) 
    65172 File
    65173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65174 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65175 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65176 File
    65177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65178 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65179 cm.set_geometry(varray, narray, tarray) 
    65180 File
    65181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65182 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65183 arv() 
    65184 File
    65185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65186 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65187 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65188 File
    65189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65190 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65191 s.vertex_colors = self.vertex_colors(report_stats) 
    65192 File
    65193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65194 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65195 values, outside = self.volume_values() 
    65196 File
    65197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65198 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65199 return self.offset_values(v, n, tf) 
    65200 File
    65201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65202 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65203 values, outside = self.vertex_values(v, xf) 
    65204 File
    65205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65206 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65207 out_of_bounds_list = True) 
    65208 File
    65209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65210 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65211 subregion, step) 
    65212 File
    65213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65214 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65215 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65216 File
    65217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65218 packages/chimerax/map/volume.py", line 1243, in
    65219 matrix_indices_to_xyz_transform 
    65220 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65221 File
    65222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65223 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65224 r = self.subregion(step, subregion) 
    65225 File
    65226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65227 packages/chimerax/map/volume.py", line 1558, in subregion 
    65228 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65229 AttributeError: 'NoneType' object has no attribute 'size' 
    65230  
    65231 AttributeError: 'NoneType' object has no attribute 'size' 
    65232  
    65233 File
    65234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65235 packages/chimerax/map/volume.py", line 1558, in subregion 
    65236 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65237  
    65238 See log for complete Python traceback. 
    65239  
    65240 Traceback (most recent call last): 
    65241 File
    65242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65243 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65244 drew = self.draw_new_frame() 
    65245 File
    65246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65247 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65248 surface.update_clip_caps(view) 
    65249 File
    65250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65251 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65252 subdivision = settings.clipping_cap_subdivision) 
    65253 File
    65254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65255 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65256 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65257 File
    65258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65259 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65260 cm.set_geometry(varray, narray, tarray) 
    65261 File
    65262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65263 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65264 arv() 
    65265 File
    65266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65267 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65268 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65269 File
    65270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65271 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65272 s.vertex_colors = self.vertex_colors(report_stats) 
    65273 File
    65274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65275 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65276 values, outside = self.volume_values() 
    65277 File
    65278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65279 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65280 return self.offset_values(v, n, tf) 
    65281 File
    65282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65283 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65284 values, outside = self.vertex_values(v, xf) 
    65285 File
    65286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65287 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65288 out_of_bounds_list = True) 
    65289 File
    65290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65291 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65292 subregion, step) 
    65293 File
    65294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65295 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65296 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65297 File
    65298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65299 packages/chimerax/map/volume.py", line 1243, in
    65300 matrix_indices_to_xyz_transform 
    65301 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65302 File
    65303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65304 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65305 r = self.subregion(step, subregion) 
    65306 File
    65307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65308 packages/chimerax/map/volume.py", line 1558, in subregion 
    65309 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65310 AttributeError: 'NoneType' object has no attribute 'size' 
    65311  
    65312 AttributeError: 'NoneType' object has no attribute 'size' 
    65313  
    65314 File
    65315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65316 packages/chimerax/map/volume.py", line 1558, in subregion 
    65317 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65318  
    65319 See log for complete Python traceback. 
    65320  
    65321 Traceback (most recent call last): 
    65322 File
    65323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65324 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65325 drew = self.draw_new_frame() 
    65326 File
    65327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65328 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65329 surface.update_clip_caps(view) 
    65330 File
    65331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65332 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65333 subdivision = settings.clipping_cap_subdivision) 
    65334 File
    65335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65336 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65337 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65338 File
    65339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65340 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65341 cm.set_geometry(varray, narray, tarray) 
    65342 File
    65343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65344 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65345 arv() 
    65346 File
    65347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65348 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65349 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65350 File
    65351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65352 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65353 s.vertex_colors = self.vertex_colors(report_stats) 
    65354 File
    65355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65356 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65357 values, outside = self.volume_values() 
    65358 File
    65359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65360 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65361 return self.offset_values(v, n, tf) 
    65362 File
    65363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65364 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65365 values, outside = self.vertex_values(v, xf) 
    65366 File
    65367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65368 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65369 out_of_bounds_list = True) 
    65370 File
    65371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65372 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65373 subregion, step) 
    65374 File
    65375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65376 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65377 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65378 File
    65379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65380 packages/chimerax/map/volume.py", line 1243, in
    65381 matrix_indices_to_xyz_transform 
    65382 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65383 File
    65384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65385 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65386 r = self.subregion(step, subregion) 
    65387 File
    65388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65389 packages/chimerax/map/volume.py", line 1558, in subregion 
    65390 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65391 AttributeError: 'NoneType' object has no attribute 'size' 
    65392  
    65393 AttributeError: 'NoneType' object has no attribute 'size' 
    65394  
    65395 File
    65396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65397 packages/chimerax/map/volume.py", line 1558, in subregion 
    65398 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65399  
    65400 See log for complete Python traceback. 
    65401  
    65402 Traceback (most recent call last): 
    65403 File
    65404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65405 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65406 drew = self.draw_new_frame() 
    65407 File
    65408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65409 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65410 surface.update_clip_caps(view) 
    65411 File
    65412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65413 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65414 subdivision = settings.clipping_cap_subdivision) 
    65415 File
    65416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65417 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65418 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65419 File
    65420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65421 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65422 cm.set_geometry(varray, narray, tarray) 
    65423 File
    65424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65425 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65426 arv() 
    65427 File
    65428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65429 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65430 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65431 File
    65432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65433 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65434 s.vertex_colors = self.vertex_colors(report_stats) 
    65435 File
    65436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65437 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65438 values, outside = self.volume_values() 
    65439 File
    65440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65441 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65442 return self.offset_values(v, n, tf) 
    65443 File
    65444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65445 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65446 values, outside = self.vertex_values(v, xf) 
    65447 File
    65448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65449 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65450 out_of_bounds_list = True) 
    65451 File
    65452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65453 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65454 subregion, step) 
    65455 File
    65456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65457 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65458 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65459 File
    65460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65461 packages/chimerax/map/volume.py", line 1243, in
    65462 matrix_indices_to_xyz_transform 
    65463 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65464 File
    65465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65466 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65467 r = self.subregion(step, subregion) 
    65468 File
    65469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65470 packages/chimerax/map/volume.py", line 1558, in subregion 
    65471 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65472 AttributeError: 'NoneType' object has no attribute 'size' 
    65473  
    65474 AttributeError: 'NoneType' object has no attribute 'size' 
    65475  
    65476 File
    65477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65478 packages/chimerax/map/volume.py", line 1558, in subregion 
    65479 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65480  
    65481 See log for complete Python traceback. 
    65482  
    65483 Traceback (most recent call last): 
    65484 File
    65485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65486 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65487 drew = self.draw_new_frame() 
    65488 File
    65489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65490 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65491 surface.update_clip_caps(view) 
    65492 File
    65493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65494 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65495 subdivision = settings.clipping_cap_subdivision) 
    65496 File
    65497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65498 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65499 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65500 File
    65501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65502 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65503 cm.set_geometry(varray, narray, tarray) 
    65504 File
    65505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65506 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65507 arv() 
    65508 File
    65509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65510 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65511 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65512 File
    65513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65514 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65515 s.vertex_colors = self.vertex_colors(report_stats) 
    65516 File
    65517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65518 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65519 values, outside = self.volume_values() 
    65520 File
    65521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65522 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65523 return self.offset_values(v, n, tf) 
    65524 File
    65525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65526 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65527 values, outside = self.vertex_values(v, xf) 
    65528 File
    65529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65530 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65531 out_of_bounds_list = True) 
    65532 File
    65533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65534 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65535 subregion, step) 
    65536 File
    65537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65538 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65539 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65540 File
    65541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65542 packages/chimerax/map/volume.py", line 1243, in
    65543 matrix_indices_to_xyz_transform 
    65544 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65545 File
    65546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65547 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65548 r = self.subregion(step, subregion) 
    65549 File
    65550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65551 packages/chimerax/map/volume.py", line 1558, in subregion 
    65552 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65553 AttributeError: 'NoneType' object has no attribute 'size' 
    65554  
    65555 AttributeError: 'NoneType' object has no attribute 'size' 
    65556  
    65557 File
    65558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65559 packages/chimerax/map/volume.py", line 1558, in subregion 
    65560 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65561  
    65562 See log for complete Python traceback. 
    65563  
    65564 Traceback (most recent call last): 
    65565 File
    65566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65567 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65568 drew = self.draw_new_frame() 
    65569 File
    65570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65571 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65572 surface.update_clip_caps(view) 
    65573 File
    65574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65575 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65576 subdivision = settings.clipping_cap_subdivision) 
    65577 File
    65578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65579 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65580 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65581 File
    65582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65583 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65584 cm.set_geometry(varray, narray, tarray) 
    65585 File
    65586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65587 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65588 arv() 
    65589 File
    65590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65591 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65592 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65593 File
    65594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65595 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65596 s.vertex_colors = self.vertex_colors(report_stats) 
    65597 File
    65598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65599 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65600 values, outside = self.volume_values() 
    65601 File
    65602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65603 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65604 return self.offset_values(v, n, tf) 
    65605 File
    65606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65607 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65608 values, outside = self.vertex_values(v, xf) 
    65609 File
    65610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65611 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65612 out_of_bounds_list = True) 
    65613 File
    65614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65615 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65616 subregion, step) 
    65617 File
    65618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65619 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65620 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65621 File
    65622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65623 packages/chimerax/map/volume.py", line 1243, in
    65624 matrix_indices_to_xyz_transform 
    65625 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65626 File
    65627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65628 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65629 r = self.subregion(step, subregion) 
    65630 File
    65631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65632 packages/chimerax/map/volume.py", line 1558, in subregion 
    65633 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65634 AttributeError: 'NoneType' object has no attribute 'size' 
    65635  
    65636 AttributeError: 'NoneType' object has no attribute 'size' 
    65637  
    65638 File
    65639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65640 packages/chimerax/map/volume.py", line 1558, in subregion 
    65641 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65642  
    65643 See log for complete Python traceback. 
    65644  
    65645 Traceback (most recent call last): 
    65646 File
    65647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65648 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65649 drew = self.draw_new_frame() 
    65650 File
    65651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65652 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65653 surface.update_clip_caps(view) 
    65654 File
    65655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65656 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65657 subdivision = settings.clipping_cap_subdivision) 
    65658 File
    65659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65660 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65661 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65662 File
    65663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65664 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65665 cm.set_geometry(varray, narray, tarray) 
    65666 File
    65667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65668 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65669 arv() 
    65670 File
    65671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65672 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65673 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65674 File
    65675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65676 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65677 s.vertex_colors = self.vertex_colors(report_stats) 
    65678 File
    65679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65680 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65681 values, outside = self.volume_values() 
    65682 File
    65683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65684 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65685 return self.offset_values(v, n, tf) 
    65686 File
    65687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65688 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65689 values, outside = self.vertex_values(v, xf) 
    65690 File
    65691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65692 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65693 out_of_bounds_list = True) 
    65694 File
    65695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65696 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65697 subregion, step) 
    65698 File
    65699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65700 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65701 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65702 File
    65703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65704 packages/chimerax/map/volume.py", line 1243, in
    65705 matrix_indices_to_xyz_transform 
    65706 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65707 File
    65708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65709 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65710 r = self.subregion(step, subregion) 
    65711 File
    65712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65713 packages/chimerax/map/volume.py", line 1558, in subregion 
    65714 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65715 AttributeError: 'NoneType' object has no attribute 'size' 
    65716  
    65717 AttributeError: 'NoneType' object has no attribute 'size' 
    65718  
    65719 File
    65720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65721 packages/chimerax/map/volume.py", line 1558, in subregion 
    65722 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65723  
    65724 See log for complete Python traceback. 
    65725  
    65726 Traceback (most recent call last): 
    65727 File
    65728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65729 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65730 drew = self.draw_new_frame() 
    65731 File
    65732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65733 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65734 surface.update_clip_caps(view) 
    65735 File
    65736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65737 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65738 subdivision = settings.clipping_cap_subdivision) 
    65739 File
    65740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65741 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65742 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65743 File
    65744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65745 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65746 cm.set_geometry(varray, narray, tarray) 
    65747 File
    65748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65749 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65750 arv() 
    65751 File
    65752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65753 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65754 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65755 File
    65756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65757 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65758 s.vertex_colors = self.vertex_colors(report_stats) 
    65759 File
    65760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65761 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65762 values, outside = self.volume_values() 
    65763 File
    65764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65765 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65766 return self.offset_values(v, n, tf) 
    65767 File
    65768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65769 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65770 values, outside = self.vertex_values(v, xf) 
    65771 File
    65772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65773 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65774 out_of_bounds_list = True) 
    65775 File
    65776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65777 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65778 subregion, step) 
    65779 File
    65780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65781 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65782 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65783 File
    65784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65785 packages/chimerax/map/volume.py", line 1243, in
    65786 matrix_indices_to_xyz_transform 
    65787 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65788 File
    65789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65790 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65791 r = self.subregion(step, subregion) 
    65792 File
    65793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65794 packages/chimerax/map/volume.py", line 1558, in subregion 
    65795 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65796 AttributeError: 'NoneType' object has no attribute 'size' 
    65797  
    65798 AttributeError: 'NoneType' object has no attribute 'size' 
    65799  
    65800 File
    65801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65802 packages/chimerax/map/volume.py", line 1558, in subregion 
    65803 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65804  
    65805 See log for complete Python traceback. 
    65806  
    65807 Traceback (most recent call last): 
    65808 File
    65809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65810 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65811 drew = self.draw_new_frame() 
    65812 File
    65813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65814 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65815 surface.update_clip_caps(view) 
    65816 File
    65817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65818 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65819 subdivision = settings.clipping_cap_subdivision) 
    65820 File
    65821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65822 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65823 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65824 File
    65825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65826 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65827 cm.set_geometry(varray, narray, tarray) 
    65828 File
    65829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65830 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65831 arv() 
    65832 File
    65833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65834 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65835 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65836 File
    65837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65838 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65839 s.vertex_colors = self.vertex_colors(report_stats) 
    65840 File
    65841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65842 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65843 values, outside = self.volume_values() 
    65844 File
    65845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65846 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65847 return self.offset_values(v, n, tf) 
    65848 File
    65849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65850 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65851 values, outside = self.vertex_values(v, xf) 
    65852 File
    65853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65854 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65855 out_of_bounds_list = True) 
    65856 File
    65857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65858 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65859 subregion, step) 
    65860 File
    65861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65862 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65863 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65864 File
    65865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65866 packages/chimerax/map/volume.py", line 1243, in
    65867 matrix_indices_to_xyz_transform 
    65868 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65869 File
    65870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65871 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65872 r = self.subregion(step, subregion) 
    65873 File
    65874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65875 packages/chimerax/map/volume.py", line 1558, in subregion 
    65876 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65877 AttributeError: 'NoneType' object has no attribute 'size' 
    65878  
    65879 AttributeError: 'NoneType' object has no attribute 'size' 
    65880  
    65881 File
    65882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65883 packages/chimerax/map/volume.py", line 1558, in subregion 
    65884 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65885  
    65886 See log for complete Python traceback. 
    65887  
    65888 Traceback (most recent call last): 
    65889 File
    65890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65891 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65892 drew = self.draw_new_frame() 
    65893 File
    65894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65895 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65896 surface.update_clip_caps(view) 
    65897 File
    65898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65899 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65900 subdivision = settings.clipping_cap_subdivision) 
    65901 File
    65902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65903 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65904 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65905 File
    65906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65907 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65908 cm.set_geometry(varray, narray, tarray) 
    65909 File
    65910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65911 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65912 arv() 
    65913 File
    65914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65915 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65916 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65917 File
    65918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65919 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    65920 s.vertex_colors = self.vertex_colors(report_stats) 
    65921 File
    65922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65923 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    65924 values, outside = self.volume_values() 
    65925 File
    65926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65927 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    65928 return self.offset_values(v, n, tf) 
    65929 File
    65930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65931 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    65932 values, outside = self.vertex_values(v, xf) 
    65933 File
    65934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65935 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    65936 out_of_bounds_list = True) 
    65937 File
    65938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65939 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    65940 subregion, step) 
    65941 File
    65942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65943 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    65944 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    65945 File
    65946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65947 packages/chimerax/map/volume.py", line 1243, in
    65948 matrix_indices_to_xyz_transform 
    65949 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    65950 File
    65951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65952 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    65953 r = self.subregion(step, subregion) 
    65954 File
    65955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65956 packages/chimerax/map/volume.py", line 1558, in subregion 
    65957 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65958 AttributeError: 'NoneType' object has no attribute 'size' 
    65959  
    65960 AttributeError: 'NoneType' object has no attribute 'size' 
    65961  
    65962 File
    65963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65964 packages/chimerax/map/volume.py", line 1558, in subregion 
    65965 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    65966  
    65967 See log for complete Python traceback. 
    65968  
    65969 Traceback (most recent call last): 
    65970 File
    65971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65972 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    65973 drew = self.draw_new_frame() 
    65974 File
    65975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65976 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    65977 surface.update_clip_caps(view) 
    65978 File
    65979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65980 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    65981 subdivision = settings.clipping_cap_subdivision) 
    65982 File
    65983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65984 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    65985 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    65986 File
    65987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65988 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    65989 cm.set_geometry(varray, narray, tarray) 
    65990 File
    65991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65992 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    65993 arv() 
    65994 File
    65995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    65996 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    65997 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    65998 File
    65999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66000 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66001 s.vertex_colors = self.vertex_colors(report_stats) 
    66002 File
    66003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66004 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66005 values, outside = self.volume_values() 
    66006 File
    66007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66008 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66009 return self.offset_values(v, n, tf) 
    66010 File
    66011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66012 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66013 values, outside = self.vertex_values(v, xf) 
    66014 File
    66015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66016 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66017 out_of_bounds_list = True) 
    66018 File
    66019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66020 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66021 subregion, step) 
    66022 File
    66023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66024 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66025 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66026 File
    66027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66028 packages/chimerax/map/volume.py", line 1243, in
    66029 matrix_indices_to_xyz_transform 
    66030 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66031 File
    66032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66033 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66034 r = self.subregion(step, subregion) 
    66035 File
    66036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66037 packages/chimerax/map/volume.py", line 1558, in subregion 
    66038 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66039 AttributeError: 'NoneType' object has no attribute 'size' 
    66040  
    66041 AttributeError: 'NoneType' object has no attribute 'size' 
    66042  
    66043 File
    66044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66045 packages/chimerax/map/volume.py", line 1558, in subregion 
    66046 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66047  
    66048 See log for complete Python traceback. 
    66049  
    66050 Traceback (most recent call last): 
    66051 File
    66052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66053 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66054 drew = self.draw_new_frame() 
    66055 File
    66056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66057 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66058 surface.update_clip_caps(view) 
    66059 File
    66060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66061 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66062 subdivision = settings.clipping_cap_subdivision) 
    66063 File
    66064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66065 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66066 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66067 File
    66068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66069 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66070 cm.set_geometry(varray, narray, tarray) 
    66071 File
    66072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66073 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66074 arv() 
    66075 File
    66076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66077 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66078 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66079 File
    66080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66081 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66082 s.vertex_colors = self.vertex_colors(report_stats) 
    66083 File
    66084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66085 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66086 values, outside = self.volume_values() 
    66087 File
    66088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66089 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66090 return self.offset_values(v, n, tf) 
    66091 File
    66092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66093 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66094 values, outside = self.vertex_values(v, xf) 
    66095 File
    66096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66097 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66098 out_of_bounds_list = True) 
    66099 File
    66100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66101 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66102 subregion, step) 
    66103 File
    66104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66105 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66106 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66107 File
    66108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66109 packages/chimerax/map/volume.py", line 1243, in
    66110 matrix_indices_to_xyz_transform 
    66111 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66112 File
    66113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66114 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66115 r = self.subregion(step, subregion) 
    66116 File
    66117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66118 packages/chimerax/map/volume.py", line 1558, in subregion 
    66119 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66120 AttributeError: 'NoneType' object has no attribute 'size' 
    66121  
    66122 AttributeError: 'NoneType' object has no attribute 'size' 
    66123  
    66124 File
    66125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66126 packages/chimerax/map/volume.py", line 1558, in subregion 
    66127 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66128  
    66129 See log for complete Python traceback. 
    66130  
    66131 Traceback (most recent call last): 
    66132 File
    66133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66134 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66135 drew = self.draw_new_frame() 
    66136 File
    66137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66138 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66139 surface.update_clip_caps(view) 
    66140 File
    66141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66142 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66143 subdivision = settings.clipping_cap_subdivision) 
    66144 File
    66145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66146 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66147 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66148 File
    66149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66150 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66151 cm.set_geometry(varray, narray, tarray) 
    66152 File
    66153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66154 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66155 arv() 
    66156 File
    66157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66158 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66159 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66160 File
    66161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66162 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66163 s.vertex_colors = self.vertex_colors(report_stats) 
    66164 File
    66165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66166 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66167 values, outside = self.volume_values() 
    66168 File
    66169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66170 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66171 return self.offset_values(v, n, tf) 
    66172 File
    66173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66174 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66175 values, outside = self.vertex_values(v, xf) 
    66176 File
    66177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66178 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66179 out_of_bounds_list = True) 
    66180 File
    66181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66182 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66183 subregion, step) 
    66184 File
    66185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66186 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66187 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66188 File
    66189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66190 packages/chimerax/map/volume.py", line 1243, in
    66191 matrix_indices_to_xyz_transform 
    66192 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66193 File
    66194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66195 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66196 r = self.subregion(step, subregion) 
    66197 File
    66198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66199 packages/chimerax/map/volume.py", line 1558, in subregion 
    66200 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66201 AttributeError: 'NoneType' object has no attribute 'size' 
    66202  
    66203 AttributeError: 'NoneType' object has no attribute 'size' 
    66204  
    66205 File
    66206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66207 packages/chimerax/map/volume.py", line 1558, in subregion 
    66208 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66209  
    66210 See log for complete Python traceback. 
    66211  
    66212 Traceback (most recent call last): 
    66213 File
    66214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66215 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66216 drew = self.draw_new_frame() 
    66217 File
    66218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66219 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66220 surface.update_clip_caps(view) 
    66221 File
    66222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66223 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66224 subdivision = settings.clipping_cap_subdivision) 
    66225 File
    66226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66227 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66228 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66229 File
    66230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66231 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66232 cm.set_geometry(varray, narray, tarray) 
    66233 File
    66234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66235 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66236 arv() 
    66237 File
    66238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66239 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66240 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66241 File
    66242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66243 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66244 s.vertex_colors = self.vertex_colors(report_stats) 
    66245 File
    66246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66247 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66248 values, outside = self.volume_values() 
    66249 File
    66250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66251 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66252 return self.offset_values(v, n, tf) 
    66253 File
    66254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66255 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66256 values, outside = self.vertex_values(v, xf) 
    66257 File
    66258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66259 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66260 out_of_bounds_list = True) 
    66261 File
    66262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66263 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66264 subregion, step) 
    66265 File
    66266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66267 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66268 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66269 File
    66270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66271 packages/chimerax/map/volume.py", line 1243, in
    66272 matrix_indices_to_xyz_transform 
    66273 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66274 File
    66275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66276 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66277 r = self.subregion(step, subregion) 
    66278 File
    66279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66280 packages/chimerax/map/volume.py", line 1558, in subregion 
    66281 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66282 AttributeError: 'NoneType' object has no attribute 'size' 
    66283  
    66284 AttributeError: 'NoneType' object has no attribute 'size' 
    66285  
    66286 File
    66287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66288 packages/chimerax/map/volume.py", line 1558, in subregion 
    66289 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66290  
    66291 See log for complete Python traceback. 
    66292  
    66293 Traceback (most recent call last): 
    66294 File
    66295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66296 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66297 drew = self.draw_new_frame() 
    66298 File
    66299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66300 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66301 surface.update_clip_caps(view) 
    66302 File
    66303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66304 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66305 subdivision = settings.clipping_cap_subdivision) 
    66306 File
    66307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66308 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66309 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66310 File
    66311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66312 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66313 cm.set_geometry(varray, narray, tarray) 
    66314 File
    66315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66316 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66317 arv() 
    66318 File
    66319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66320 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66321 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66322 File
    66323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66324 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66325 s.vertex_colors = self.vertex_colors(report_stats) 
    66326 File
    66327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66328 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66329 values, outside = self.volume_values() 
    66330 File
    66331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66332 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66333 return self.offset_values(v, n, tf) 
    66334 File
    66335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66336 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66337 values, outside = self.vertex_values(v, xf) 
    66338 File
    66339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66340 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66341 out_of_bounds_list = True) 
    66342 File
    66343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66344 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66345 subregion, step) 
    66346 File
    66347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66348 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66349 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66350 File
    66351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66352 packages/chimerax/map/volume.py", line 1243, in
    66353 matrix_indices_to_xyz_transform 
    66354 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66355 File
    66356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66357 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66358 r = self.subregion(step, subregion) 
    66359 File
    66360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66361 packages/chimerax/map/volume.py", line 1558, in subregion 
    66362 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66363 AttributeError: 'NoneType' object has no attribute 'size' 
    66364  
    66365 AttributeError: 'NoneType' object has no attribute 'size' 
    66366  
    66367 File
    66368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66369 packages/chimerax/map/volume.py", line 1558, in subregion 
    66370 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66371  
    66372 See log for complete Python traceback. 
    66373  
    66374 Traceback (most recent call last): 
    66375 File
    66376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66377 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66378 drew = self.draw_new_frame() 
    66379 File
    66380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66381 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66382 surface.update_clip_caps(view) 
    66383 File
    66384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66385 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66386 subdivision = settings.clipping_cap_subdivision) 
    66387 File
    66388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66389 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66390 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66391 File
    66392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66393 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66394 cm.set_geometry(varray, narray, tarray) 
    66395 File
    66396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66397 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66398 arv() 
    66399 File
    66400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66401 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66402 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66403 File
    66404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66405 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66406 s.vertex_colors = self.vertex_colors(report_stats) 
    66407 File
    66408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66409 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66410 values, outside = self.volume_values() 
    66411 File
    66412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66413 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66414 return self.offset_values(v, n, tf) 
    66415 File
    66416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66417 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66418 values, outside = self.vertex_values(v, xf) 
    66419 File
    66420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66421 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66422 out_of_bounds_list = True) 
    66423 File
    66424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66425 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66426 subregion, step) 
    66427 File
    66428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66429 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66430 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66431 File
    66432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66433 packages/chimerax/map/volume.py", line 1243, in
    66434 matrix_indices_to_xyz_transform 
    66435 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66436 File
    66437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66438 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66439 r = self.subregion(step, subregion) 
    66440 File
    66441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66442 packages/chimerax/map/volume.py", line 1558, in subregion 
    66443 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66444 AttributeError: 'NoneType' object has no attribute 'size' 
    66445  
    66446 AttributeError: 'NoneType' object has no attribute 'size' 
    66447  
    66448 File
    66449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66450 packages/chimerax/map/volume.py", line 1558, in subregion 
    66451 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66452  
    66453 See log for complete Python traceback. 
    66454  
    66455 Traceback (most recent call last): 
    66456 File
    66457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66458 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66459 drew = self.draw_new_frame() 
    66460 File
    66461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66462 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66463 surface.update_clip_caps(view) 
    66464 File
    66465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66466 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66467 subdivision = settings.clipping_cap_subdivision) 
    66468 File
    66469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66470 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66471 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66472 File
    66473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66474 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66475 cm.set_geometry(varray, narray, tarray) 
    66476 File
    66477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66478 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66479 arv() 
    66480 File
    66481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66482 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66483 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66484 File
    66485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66486 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66487 s.vertex_colors = self.vertex_colors(report_stats) 
    66488 File
    66489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66490 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66491 values, outside = self.volume_values() 
    66492 File
    66493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66494 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66495 return self.offset_values(v, n, tf) 
    66496 File
    66497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66498 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66499 values, outside = self.vertex_values(v, xf) 
    66500 File
    66501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66502 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66503 out_of_bounds_list = True) 
    66504 File
    66505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66506 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66507 subregion, step) 
    66508 File
    66509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66510 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66511 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66512 File
    66513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66514 packages/chimerax/map/volume.py", line 1243, in
    66515 matrix_indices_to_xyz_transform 
    66516 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66517 File
    66518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66519 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66520 r = self.subregion(step, subregion) 
    66521 File
    66522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66523 packages/chimerax/map/volume.py", line 1558, in subregion 
    66524 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66525 AttributeError: 'NoneType' object has no attribute 'size' 
    66526  
    66527 AttributeError: 'NoneType' object has no attribute 'size' 
    66528  
    66529 File
    66530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66531 packages/chimerax/map/volume.py", line 1558, in subregion 
    66532 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66533  
    66534 See log for complete Python traceback. 
    66535  
    66536 Traceback (most recent call last): 
    66537 File
    66538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66539 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66540 drew = self.draw_new_frame() 
    66541 File
    66542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66543 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66544 surface.update_clip_caps(view) 
    66545 File
    66546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66547 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66548 subdivision = settings.clipping_cap_subdivision) 
    66549 File
    66550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66551 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66552 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66553 File
    66554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66555 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66556 cm.set_geometry(varray, narray, tarray) 
    66557 File
    66558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66559 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66560 arv() 
    66561 File
    66562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66563 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66564 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66565 File
    66566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66567 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66568 s.vertex_colors = self.vertex_colors(report_stats) 
    66569 File
    66570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66571 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66572 values, outside = self.volume_values() 
    66573 File
    66574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66575 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66576 return self.offset_values(v, n, tf) 
    66577 File
    66578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66579 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66580 values, outside = self.vertex_values(v, xf) 
    66581 File
    66582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66583 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66584 out_of_bounds_list = True) 
    66585 File
    66586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66587 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66588 subregion, step) 
    66589 File
    66590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66591 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66592 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66593 File
    66594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66595 packages/chimerax/map/volume.py", line 1243, in
    66596 matrix_indices_to_xyz_transform 
    66597 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66598 File
    66599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66600 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66601 r = self.subregion(step, subregion) 
    66602 File
    66603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66604 packages/chimerax/map/volume.py", line 1558, in subregion 
    66605 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66606 AttributeError: 'NoneType' object has no attribute 'size' 
    66607  
    66608 AttributeError: 'NoneType' object has no attribute 'size' 
    66609  
    66610 File
    66611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66612 packages/chimerax/map/volume.py", line 1558, in subregion 
    66613 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66614  
    66615 See log for complete Python traceback. 
    66616  
    66617 Traceback (most recent call last): 
    66618 File
    66619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66620 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66621 drew = self.draw_new_frame() 
    66622 File
    66623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66624 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66625 surface.update_clip_caps(view) 
    66626 File
    66627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66628 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66629 subdivision = settings.clipping_cap_subdivision) 
    66630 File
    66631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66632 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66633 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66634 File
    66635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66636 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66637 cm.set_geometry(varray, narray, tarray) 
    66638 File
    66639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66640 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66641 arv() 
    66642 File
    66643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66644 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66645 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66646 File
    66647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66648 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66649 s.vertex_colors = self.vertex_colors(report_stats) 
    66650 File
    66651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66652 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66653 values, outside = self.volume_values() 
    66654 File
    66655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66656 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66657 return self.offset_values(v, n, tf) 
    66658 File
    66659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66660 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66661 values, outside = self.vertex_values(v, xf) 
    66662 File
    66663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66664 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66665 out_of_bounds_list = True) 
    66666 File
    66667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66668 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66669 subregion, step) 
    66670 File
    66671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66672 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66673 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66674 File
    66675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66676 packages/chimerax/map/volume.py", line 1243, in
    66677 matrix_indices_to_xyz_transform 
    66678 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66679 File
    66680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66681 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66682 r = self.subregion(step, subregion) 
    66683 File
    66684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66685 packages/chimerax/map/volume.py", line 1558, in subregion 
    66686 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66687 AttributeError: 'NoneType' object has no attribute 'size' 
    66688  
    66689 AttributeError: 'NoneType' object has no attribute 'size' 
    66690  
    66691 File
    66692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66693 packages/chimerax/map/volume.py", line 1558, in subregion 
    66694 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66695  
    66696 See log for complete Python traceback. 
    66697  
    66698 Traceback (most recent call last): 
    66699 File
    66700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66701 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66702 drew = self.draw_new_frame() 
    66703 File
    66704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66705 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66706 surface.update_clip_caps(view) 
    66707 File
    66708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66709 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66710 subdivision = settings.clipping_cap_subdivision) 
    66711 File
    66712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66713 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66714 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66715 File
    66716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66717 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66718 cm.set_geometry(varray, narray, tarray) 
    66719 File
    66720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66721 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66722 arv() 
    66723 File
    66724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66725 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66726 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66727 File
    66728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66729 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66730 s.vertex_colors = self.vertex_colors(report_stats) 
    66731 File
    66732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66733 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66734 values, outside = self.volume_values() 
    66735 File
    66736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66737 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66738 return self.offset_values(v, n, tf) 
    66739 File
    66740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66741 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66742 values, outside = self.vertex_values(v, xf) 
    66743 File
    66744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66745 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66746 out_of_bounds_list = True) 
    66747 File
    66748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66749 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66750 subregion, step) 
    66751 File
    66752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66753 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66754 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66755 File
    66756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66757 packages/chimerax/map/volume.py", line 1243, in
    66758 matrix_indices_to_xyz_transform 
    66759 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66760 File
    66761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66762 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66763 r = self.subregion(step, subregion) 
    66764 File
    66765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66766 packages/chimerax/map/volume.py", line 1558, in subregion 
    66767 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66768 AttributeError: 'NoneType' object has no attribute 'size' 
    66769  
    66770 AttributeError: 'NoneType' object has no attribute 'size' 
    66771  
    66772 File
    66773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66774 packages/chimerax/map/volume.py", line 1558, in subregion 
    66775 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66776  
    66777 See log for complete Python traceback. 
    66778  
    66779 Traceback (most recent call last): 
    66780 File
    66781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66782 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66783 drew = self.draw_new_frame() 
    66784 File
    66785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66786 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66787 surface.update_clip_caps(view) 
    66788 File
    66789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66790 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66791 subdivision = settings.clipping_cap_subdivision) 
    66792 File
    66793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66794 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66795 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66796 File
    66797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66798 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66799 cm.set_geometry(varray, narray, tarray) 
    66800 File
    66801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66802 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66803 arv() 
    66804 File
    66805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66806 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66807 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66808 File
    66809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66810 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66811 s.vertex_colors = self.vertex_colors(report_stats) 
    66812 File
    66813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66814 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66815 values, outside = self.volume_values() 
    66816 File
    66817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66818 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66819 return self.offset_values(v, n, tf) 
    66820 File
    66821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66822 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66823 values, outside = self.vertex_values(v, xf) 
    66824 File
    66825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66826 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66827 out_of_bounds_list = True) 
    66828 File
    66829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66830 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66831 subregion, step) 
    66832 File
    66833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66834 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66835 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66836 File
    66837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66838 packages/chimerax/map/volume.py", line 1243, in
    66839 matrix_indices_to_xyz_transform 
    66840 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66841 File
    66842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66843 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66844 r = self.subregion(step, subregion) 
    66845 File
    66846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66847 packages/chimerax/map/volume.py", line 1558, in subregion 
    66848 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66849 AttributeError: 'NoneType' object has no attribute 'size' 
    66850  
    66851 AttributeError: 'NoneType' object has no attribute 'size' 
    66852  
    66853 File
    66854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66855 packages/chimerax/map/volume.py", line 1558, in subregion 
    66856 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66857  
    66858 See log for complete Python traceback. 
    66859  
    66860 Traceback (most recent call last): 
    66861 File
    66862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66863 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66864 drew = self.draw_new_frame() 
    66865 File
    66866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66867 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66868 surface.update_clip_caps(view) 
    66869 File
    66870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66871 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66872 subdivision = settings.clipping_cap_subdivision) 
    66873 File
    66874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66875 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66876 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66877 File
    66878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66879 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66880 cm.set_geometry(varray, narray, tarray) 
    66881 File
    66882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66883 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66884 arv() 
    66885 File
    66886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66887 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66888 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66889 File
    66890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66891 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66892 s.vertex_colors = self.vertex_colors(report_stats) 
    66893 File
    66894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66895 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66896 values, outside = self.volume_values() 
    66897 File
    66898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66899 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66900 return self.offset_values(v, n, tf) 
    66901 File
    66902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66903 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66904 values, outside = self.vertex_values(v, xf) 
    66905 File
    66906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66907 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66908 out_of_bounds_list = True) 
    66909 File
    66910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66911 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66912 subregion, step) 
    66913 File
    66914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66915 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66916 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66917 File
    66918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66919 packages/chimerax/map/volume.py", line 1243, in
    66920 matrix_indices_to_xyz_transform 
    66921 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    66922 File
    66923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66924 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    66925 r = self.subregion(step, subregion) 
    66926 File
    66927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66928 packages/chimerax/map/volume.py", line 1558, in subregion 
    66929 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66930 AttributeError: 'NoneType' object has no attribute 'size' 
    66931  
    66932 AttributeError: 'NoneType' object has no attribute 'size' 
    66933  
    66934 File
    66935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66936 packages/chimerax/map/volume.py", line 1558, in subregion 
    66937 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    66938  
    66939 See log for complete Python traceback. 
    66940  
    66941 Traceback (most recent call last): 
    66942 File
    66943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66944 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    66945 drew = self.draw_new_frame() 
    66946 File
    66947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66948 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    66949 surface.update_clip_caps(view) 
    66950 File
    66951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66952 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    66953 subdivision = settings.clipping_cap_subdivision) 
    66954 File
    66955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66956 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    66957 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    66958 File
    66959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66960 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    66961 cm.set_geometry(varray, narray, tarray) 
    66962 File
    66963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66964 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    66965 arv() 
    66966 File
    66967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66968 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    66969 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    66970 File
    66971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66972 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    66973 s.vertex_colors = self.vertex_colors(report_stats) 
    66974 File
    66975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66976 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    66977 values, outside = self.volume_values() 
    66978 File
    66979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66980 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    66981 return self.offset_values(v, n, tf) 
    66982 File
    66983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66984 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    66985 values, outside = self.vertex_values(v, xf) 
    66986 File
    66987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66988 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    66989 out_of_bounds_list = True) 
    66990 File
    66991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66992 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    66993 subregion, step) 
    66994 File
    66995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    66996 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    66997 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    66998 File
    66999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67000 packages/chimerax/map/volume.py", line 1243, in
    67001 matrix_indices_to_xyz_transform 
    67002 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67003 File
    67004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67005 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67006 r = self.subregion(step, subregion) 
    67007 File
    67008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67009 packages/chimerax/map/volume.py", line 1558, in subregion 
    67010 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67011 AttributeError: 'NoneType' object has no attribute 'size' 
    67012  
    67013 AttributeError: 'NoneType' object has no attribute 'size' 
    67014  
    67015 File
    67016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67017 packages/chimerax/map/volume.py", line 1558, in subregion 
    67018 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67019  
    67020 See log for complete Python traceback. 
    67021  
    67022 Traceback (most recent call last): 
    67023 File
    67024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67025 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67026 drew = self.draw_new_frame() 
    67027 File
    67028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67029 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67030 surface.update_clip_caps(view) 
    67031 File
    67032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67033 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67034 subdivision = settings.clipping_cap_subdivision) 
    67035 File
    67036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67037 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67038 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67039 File
    67040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67041 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67042 cm.set_geometry(varray, narray, tarray) 
    67043 File
    67044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67045 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67046 arv() 
    67047 File
    67048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67049 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67050 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67051 File
    67052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67053 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67054 s.vertex_colors = self.vertex_colors(report_stats) 
    67055 File
    67056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67057 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67058 values, outside = self.volume_values() 
    67059 File
    67060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67061 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67062 return self.offset_values(v, n, tf) 
    67063 File
    67064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67065 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67066 values, outside = self.vertex_values(v, xf) 
    67067 File
    67068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67069 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67070 out_of_bounds_list = True) 
    67071 File
    67072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67073 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67074 subregion, step) 
    67075 File
    67076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67077 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67078 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67079 File
    67080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67081 packages/chimerax/map/volume.py", line 1243, in
    67082 matrix_indices_to_xyz_transform 
    67083 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67084 File
    67085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67086 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67087 r = self.subregion(step, subregion) 
    67088 File
    67089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67090 packages/chimerax/map/volume.py", line 1558, in subregion 
    67091 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67092 AttributeError: 'NoneType' object has no attribute 'size' 
    67093  
    67094 AttributeError: 'NoneType' object has no attribute 'size' 
    67095  
    67096 File
    67097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67098 packages/chimerax/map/volume.py", line 1558, in subregion 
    67099 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67100  
    67101 See log for complete Python traceback. 
    67102  
    67103 Traceback (most recent call last): 
    67104 File
    67105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67106 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67107 drew = self.draw_new_frame() 
    67108 File
    67109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67110 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67111 surface.update_clip_caps(view) 
    67112 File
    67113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67114 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67115 subdivision = settings.clipping_cap_subdivision) 
    67116 File
    67117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67118 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67119 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67120 File
    67121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67122 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67123 cm.set_geometry(varray, narray, tarray) 
    67124 File
    67125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67126 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67127 arv() 
    67128 File
    67129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67130 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67131 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67132 File
    67133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67134 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67135 s.vertex_colors = self.vertex_colors(report_stats) 
    67136 File
    67137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67138 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67139 values, outside = self.volume_values() 
    67140 File
    67141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67142 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67143 return self.offset_values(v, n, tf) 
    67144 File
    67145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67146 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67147 values, outside = self.vertex_values(v, xf) 
    67148 File
    67149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67150 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67151 out_of_bounds_list = True) 
    67152 File
    67153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67154 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67155 subregion, step) 
    67156 File
    67157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67158 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67159 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67160 File
    67161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67162 packages/chimerax/map/volume.py", line 1243, in
    67163 matrix_indices_to_xyz_transform 
    67164 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67165 File
    67166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67167 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67168 r = self.subregion(step, subregion) 
    67169 File
    67170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67171 packages/chimerax/map/volume.py", line 1558, in subregion 
    67172 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67173 AttributeError: 'NoneType' object has no attribute 'size' 
    67174  
    67175 AttributeError: 'NoneType' object has no attribute 'size' 
    67176  
    67177 File
    67178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67179 packages/chimerax/map/volume.py", line 1558, in subregion 
    67180 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67181  
    67182 See log for complete Python traceback. 
    67183  
    67184 Traceback (most recent call last): 
    67185 File
    67186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67187 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67188 drew = self.draw_new_frame() 
    67189 File
    67190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67191 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67192 surface.update_clip_caps(view) 
    67193 File
    67194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67195 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67196 subdivision = settings.clipping_cap_subdivision) 
    67197 File
    67198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67199 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67200 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67201 File
    67202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67203 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67204 cm.set_geometry(varray, narray, tarray) 
    67205 File
    67206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67207 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67208 arv() 
    67209 File
    67210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67211 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67212 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67213 File
    67214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67215 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67216 s.vertex_colors = self.vertex_colors(report_stats) 
    67217 File
    67218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67219 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67220 values, outside = self.volume_values() 
    67221 File
    67222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67223 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67224 return self.offset_values(v, n, tf) 
    67225 File
    67226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67227 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67228 values, outside = self.vertex_values(v, xf) 
    67229 File
    67230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67231 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67232 out_of_bounds_list = True) 
    67233 File
    67234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67235 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67236 subregion, step) 
    67237 File
    67238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67239 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67240 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67241 File
    67242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67243 packages/chimerax/map/volume.py", line 1243, in
    67244 matrix_indices_to_xyz_transform 
    67245 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67246 File
    67247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67248 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67249 r = self.subregion(step, subregion) 
    67250 File
    67251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67252 packages/chimerax/map/volume.py", line 1558, in subregion 
    67253 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67254 AttributeError: 'NoneType' object has no attribute 'size' 
    67255  
    67256 AttributeError: 'NoneType' object has no attribute 'size' 
    67257  
    67258 File
    67259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67260 packages/chimerax/map/volume.py", line 1558, in subregion 
    67261 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67262  
    67263 See log for complete Python traceback. 
    67264  
    67265 Traceback (most recent call last): 
    67266 File
    67267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67268 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67269 drew = self.draw_new_frame() 
    67270 File
    67271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67272 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67273 surface.update_clip_caps(view) 
    67274 File
    67275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67276 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67277 subdivision = settings.clipping_cap_subdivision) 
    67278 File
    67279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67280 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67281 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67282 File
    67283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67284 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67285 cm.set_geometry(varray, narray, tarray) 
    67286 File
    67287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67288 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67289 arv() 
    67290 File
    67291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67292 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67293 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67294 File
    67295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67296 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67297 s.vertex_colors = self.vertex_colors(report_stats) 
    67298 File
    67299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67300 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67301 values, outside = self.volume_values() 
    67302 File
    67303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67304 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67305 return self.offset_values(v, n, tf) 
    67306 File
    67307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67308 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67309 values, outside = self.vertex_values(v, xf) 
    67310 File
    67311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67312 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67313 out_of_bounds_list = True) 
    67314 File
    67315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67316 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67317 subregion, step) 
    67318 File
    67319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67320 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67321 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67322 File
    67323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67324 packages/chimerax/map/volume.py", line 1243, in
    67325 matrix_indices_to_xyz_transform 
    67326 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67327 File
    67328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67329 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67330 r = self.subregion(step, subregion) 
    67331 File
    67332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67333 packages/chimerax/map/volume.py", line 1558, in subregion 
    67334 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67335 AttributeError: 'NoneType' object has no attribute 'size' 
    67336  
    67337 AttributeError: 'NoneType' object has no attribute 'size' 
    67338  
    67339 File
    67340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67341 packages/chimerax/map/volume.py", line 1558, in subregion 
    67342 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67343  
    67344 See log for complete Python traceback. 
    67345  
    67346 Traceback (most recent call last): 
    67347 File
    67348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67349 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67350 drew = self.draw_new_frame() 
    67351 File
    67352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67353 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67354 surface.update_clip_caps(view) 
    67355 File
    67356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67357 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67358 subdivision = settings.clipping_cap_subdivision) 
    67359 File
    67360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67361 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67362 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67363 File
    67364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67365 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67366 cm.set_geometry(varray, narray, tarray) 
    67367 File
    67368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67369 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67370 arv() 
    67371 File
    67372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67373 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67374 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67375 File
    67376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67377 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67378 s.vertex_colors = self.vertex_colors(report_stats) 
    67379 File
    67380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67381 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67382 values, outside = self.volume_values() 
    67383 File
    67384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67385 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67386 return self.offset_values(v, n, tf) 
    67387 File
    67388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67389 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67390 values, outside = self.vertex_values(v, xf) 
    67391 File
    67392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67393 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67394 out_of_bounds_list = True) 
    67395 File
    67396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67397 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67398 subregion, step) 
    67399 File
    67400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67401 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67402 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67403 File
    67404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67405 packages/chimerax/map/volume.py", line 1243, in
    67406 matrix_indices_to_xyz_transform 
    67407 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67408 File
    67409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67410 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67411 r = self.subregion(step, subregion) 
    67412 File
    67413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67414 packages/chimerax/map/volume.py", line 1558, in subregion 
    67415 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67416 AttributeError: 'NoneType' object has no attribute 'size' 
    67417  
    67418 AttributeError: 'NoneType' object has no attribute 'size' 
    67419  
    67420 File
    67421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67422 packages/chimerax/map/volume.py", line 1558, in subregion 
    67423 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67424  
    67425 See log for complete Python traceback. 
    67426  
    67427 Traceback (most recent call last): 
    67428 File
    67429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67430 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67431 drew = self.draw_new_frame() 
    67432 File
    67433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67434 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67435 surface.update_clip_caps(view) 
    67436 File
    67437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67438 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67439 subdivision = settings.clipping_cap_subdivision) 
    67440 File
    67441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67442 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67443 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67444 File
    67445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67446 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67447 cm.set_geometry(varray, narray, tarray) 
    67448 File
    67449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67450 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67451 arv() 
    67452 File
    67453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67454 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67455 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67456 File
    67457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67458 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67459 s.vertex_colors = self.vertex_colors(report_stats) 
    67460 File
    67461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67462 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67463 values, outside = self.volume_values() 
    67464 File
    67465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67466 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67467 return self.offset_values(v, n, tf) 
    67468 File
    67469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67470 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67471 values, outside = self.vertex_values(v, xf) 
    67472 File
    67473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67474 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67475 out_of_bounds_list = True) 
    67476 File
    67477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67478 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67479 subregion, step) 
    67480 File
    67481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67482 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67483 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67484 File
    67485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67486 packages/chimerax/map/volume.py", line 1243, in
    67487 matrix_indices_to_xyz_transform 
    67488 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67489 File
    67490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67491 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67492 r = self.subregion(step, subregion) 
    67493 File
    67494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67495 packages/chimerax/map/volume.py", line 1558, in subregion 
    67496 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67497 AttributeError: 'NoneType' object has no attribute 'size' 
    67498  
    67499 AttributeError: 'NoneType' object has no attribute 'size' 
    67500  
    67501 File
    67502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67503 packages/chimerax/map/volume.py", line 1558, in subregion 
    67504 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67505  
    67506 See log for complete Python traceback. 
    67507  
    67508 Traceback (most recent call last): 
    67509 File
    67510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67511 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67512 drew = self.draw_new_frame() 
    67513 File
    67514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67515 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67516 surface.update_clip_caps(view) 
    67517 File
    67518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67519 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67520 subdivision = settings.clipping_cap_subdivision) 
    67521 File
    67522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67523 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67524 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67525 File
    67526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67527 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67528 cm.set_geometry(varray, narray, tarray) 
    67529 File
    67530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67531 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67532 arv() 
    67533 File
    67534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67535 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67536 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67537 File
    67538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67539 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67540 s.vertex_colors = self.vertex_colors(report_stats) 
    67541 File
    67542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67543 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67544 values, outside = self.volume_values() 
    67545 File
    67546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67547 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67548 return self.offset_values(v, n, tf) 
    67549 File
    67550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67551 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67552 values, outside = self.vertex_values(v, xf) 
    67553 File
    67554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67555 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67556 out_of_bounds_list = True) 
    67557 File
    67558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67559 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67560 subregion, step) 
    67561 File
    67562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67563 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67564 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67565 File
    67566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67567 packages/chimerax/map/volume.py", line 1243, in
    67568 matrix_indices_to_xyz_transform 
    67569 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67570 File
    67571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67572 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67573 r = self.subregion(step, subregion) 
    67574 File
    67575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67576 packages/chimerax/map/volume.py", line 1558, in subregion 
    67577 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67578 AttributeError: 'NoneType' object has no attribute 'size' 
    67579  
    67580 AttributeError: 'NoneType' object has no attribute 'size' 
    67581  
    67582 File
    67583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67584 packages/chimerax/map/volume.py", line 1558, in subregion 
    67585 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67586  
    67587 See log for complete Python traceback. 
    67588  
    67589 Traceback (most recent call last): 
    67590 File
    67591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67592 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67593 drew = self.draw_new_frame() 
    67594 File
    67595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67596 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67597 surface.update_clip_caps(view) 
    67598 File
    67599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67600 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67601 subdivision = settings.clipping_cap_subdivision) 
    67602 File
    67603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67604 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67605 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67606 File
    67607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67608 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67609 cm.set_geometry(varray, narray, tarray) 
    67610 File
    67611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67612 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67613 arv() 
    67614 File
    67615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67616 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67617 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67618 File
    67619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67620 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67621 s.vertex_colors = self.vertex_colors(report_stats) 
    67622 File
    67623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67624 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67625 values, outside = self.volume_values() 
    67626 File
    67627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67628 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67629 return self.offset_values(v, n, tf) 
    67630 File
    67631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67632 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67633 values, outside = self.vertex_values(v, xf) 
    67634 File
    67635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67636 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67637 out_of_bounds_list = True) 
    67638 File
    67639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67640 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67641 subregion, step) 
    67642 File
    67643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67644 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67645 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67646 File
    67647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67648 packages/chimerax/map/volume.py", line 1243, in
    67649 matrix_indices_to_xyz_transform 
    67650 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67651 File
    67652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67653 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67654 r = self.subregion(step, subregion) 
    67655 File
    67656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67657 packages/chimerax/map/volume.py", line 1558, in subregion 
    67658 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67659 AttributeError: 'NoneType' object has no attribute 'size' 
    67660  
    67661 AttributeError: 'NoneType' object has no attribute 'size' 
    67662  
    67663 File
    67664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67665 packages/chimerax/map/volume.py", line 1558, in subregion 
    67666 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67667  
    67668 See log for complete Python traceback. 
    67669  
    67670 Traceback (most recent call last): 
    67671 File
    67672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67673 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67674 drew = self.draw_new_frame() 
    67675 File
    67676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67677 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67678 surface.update_clip_caps(view) 
    67679 File
    67680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67681 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67682 subdivision = settings.clipping_cap_subdivision) 
    67683 File
    67684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67685 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67686 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67687 File
    67688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67689 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67690 cm.set_geometry(varray, narray, tarray) 
    67691 File
    67692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67693 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67694 arv() 
    67695 File
    67696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67697 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67698 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67699 File
    67700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67701 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67702 s.vertex_colors = self.vertex_colors(report_stats) 
    67703 File
    67704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67705 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67706 values, outside = self.volume_values() 
    67707 File
    67708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67709 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67710 return self.offset_values(v, n, tf) 
    67711 File
    67712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67713 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67714 values, outside = self.vertex_values(v, xf) 
    67715 File
    67716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67717 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67718 out_of_bounds_list = True) 
    67719 File
    67720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67721 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67722 subregion, step) 
    67723 File
    67724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67725 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67726 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67727 File
    67728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67729 packages/chimerax/map/volume.py", line 1243, in
    67730 matrix_indices_to_xyz_transform 
    67731 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67732 File
    67733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67734 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67735 r = self.subregion(step, subregion) 
    67736 File
    67737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67738 packages/chimerax/map/volume.py", line 1558, in subregion 
    67739 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67740 AttributeError: 'NoneType' object has no attribute 'size' 
    67741  
    67742 AttributeError: 'NoneType' object has no attribute 'size' 
    67743  
    67744 File
    67745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67746 packages/chimerax/map/volume.py", line 1558, in subregion 
    67747 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67748  
    67749 See log for complete Python traceback. 
    67750  
    67751 Traceback (most recent call last): 
    67752 File
    67753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67754 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67755 drew = self.draw_new_frame() 
    67756 File
    67757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67758 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67759 surface.update_clip_caps(view) 
    67760 File
    67761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67762 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67763 subdivision = settings.clipping_cap_subdivision) 
    67764 File
    67765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67766 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67767 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67768 File
    67769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67770 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67771 cm.set_geometry(varray, narray, tarray) 
    67772 File
    67773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67774 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67775 arv() 
    67776 File
    67777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67778 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67779 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67780 File
    67781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67782 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67783 s.vertex_colors = self.vertex_colors(report_stats) 
    67784 File
    67785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67786 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67787 values, outside = self.volume_values() 
    67788 File
    67789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67790 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67791 return self.offset_values(v, n, tf) 
    67792 File
    67793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67794 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67795 values, outside = self.vertex_values(v, xf) 
    67796 File
    67797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67798 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67799 out_of_bounds_list = True) 
    67800 File
    67801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67802 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67803 subregion, step) 
    67804 File
    67805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67806 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67807 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67808 File
    67809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67810 packages/chimerax/map/volume.py", line 1243, in
    67811 matrix_indices_to_xyz_transform 
    67812 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67813 File
    67814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67815 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67816 r = self.subregion(step, subregion) 
    67817 File
    67818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67819 packages/chimerax/map/volume.py", line 1558, in subregion 
    67820 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67821 AttributeError: 'NoneType' object has no attribute 'size' 
    67822  
    67823 AttributeError: 'NoneType' object has no attribute 'size' 
    67824  
    67825 File
    67826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67827 packages/chimerax/map/volume.py", line 1558, in subregion 
    67828 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67829  
    67830 See log for complete Python traceback. 
    67831  
    67832 Traceback (most recent call last): 
    67833 File
    67834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67835 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67836 drew = self.draw_new_frame() 
    67837 File
    67838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67839 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67840 surface.update_clip_caps(view) 
    67841 File
    67842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67843 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67844 subdivision = settings.clipping_cap_subdivision) 
    67845 File
    67846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67847 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67848 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67849 File
    67850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67851 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67852 cm.set_geometry(varray, narray, tarray) 
    67853 File
    67854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67855 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67856 arv() 
    67857 File
    67858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67859 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67860 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67861 File
    67862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67863 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67864 s.vertex_colors = self.vertex_colors(report_stats) 
    67865 File
    67866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67867 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67868 values, outside = self.volume_values() 
    67869 File
    67870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67871 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67872 return self.offset_values(v, n, tf) 
    67873 File
    67874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67875 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67876 values, outside = self.vertex_values(v, xf) 
    67877 File
    67878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67879 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67880 out_of_bounds_list = True) 
    67881 File
    67882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67883 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67884 subregion, step) 
    67885 File
    67886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67887 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67888 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67889 File
    67890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67891 packages/chimerax/map/volume.py", line 1243, in
    67892 matrix_indices_to_xyz_transform 
    67893 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67894 File
    67895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67896 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67897 r = self.subregion(step, subregion) 
    67898 File
    67899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67900 packages/chimerax/map/volume.py", line 1558, in subregion 
    67901 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67902 AttributeError: 'NoneType' object has no attribute 'size' 
    67903  
    67904 AttributeError: 'NoneType' object has no attribute 'size' 
    67905  
    67906 File
    67907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67908 packages/chimerax/map/volume.py", line 1558, in subregion 
    67909 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67910  
    67911 See log for complete Python traceback. 
    67912  
    67913 Traceback (most recent call last): 
    67914 File
    67915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67916 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67917 drew = self.draw_new_frame() 
    67918 File
    67919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67920 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    67921 surface.update_clip_caps(view) 
    67922 File
    67923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67924 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    67925 subdivision = settings.clipping_cap_subdivision) 
    67926 File
    67927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67928 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    67929 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    67930 File
    67931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67932 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    67933 cm.set_geometry(varray, narray, tarray) 
    67934 File
    67935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67936 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    67937 arv() 
    67938 File
    67939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67940 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    67941 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    67942 File
    67943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67944 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    67945 s.vertex_colors = self.vertex_colors(report_stats) 
    67946 File
    67947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67948 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    67949 values, outside = self.volume_values() 
    67950 File
    67951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67952 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    67953 return self.offset_values(v, n, tf) 
    67954 File
    67955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67956 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    67957 values, outside = self.vertex_values(v, xf) 
    67958 File
    67959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67960 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    67961 out_of_bounds_list = True) 
    67962 File
    67963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67964 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    67965 subregion, step) 
    67966 File
    67967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67968 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    67969 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    67970 File
    67971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67972 packages/chimerax/map/volume.py", line 1243, in
    67973 matrix_indices_to_xyz_transform 
    67974 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    67975 File
    67976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67977 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    67978 r = self.subregion(step, subregion) 
    67979 File
    67980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67981 packages/chimerax/map/volume.py", line 1558, in subregion 
    67982 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67983 AttributeError: 'NoneType' object has no attribute 'size' 
    67984  
    67985 AttributeError: 'NoneType' object has no attribute 'size' 
    67986  
    67987 File
    67988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67989 packages/chimerax/map/volume.py", line 1558, in subregion 
    67990 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    67991  
    67992 See log for complete Python traceback. 
    67993  
    67994 Traceback (most recent call last): 
    67995 File
    67996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    67997 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    67998 drew = self.draw_new_frame() 
    67999 File
    68000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68001 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68002 surface.update_clip_caps(view) 
    68003 File
    68004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68005 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68006 subdivision = settings.clipping_cap_subdivision) 
    68007 File
    68008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68009 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68010 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68011 File
    68012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68013 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68014 cm.set_geometry(varray, narray, tarray) 
    68015 File
    68016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68017 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68018 arv() 
    68019 File
    68020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68021 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68022 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68023 File
    68024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68025 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68026 s.vertex_colors = self.vertex_colors(report_stats) 
    68027 File
    68028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68029 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68030 values, outside = self.volume_values() 
    68031 File
    68032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68033 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68034 return self.offset_values(v, n, tf) 
    68035 File
    68036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68037 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68038 values, outside = self.vertex_values(v, xf) 
    68039 File
    68040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68041 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68042 out_of_bounds_list = True) 
    68043 File
    68044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68045 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68046 subregion, step) 
    68047 File
    68048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68049 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68050 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68051 File
    68052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68053 packages/chimerax/map/volume.py", line 1243, in
    68054 matrix_indices_to_xyz_transform 
    68055 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68056 File
    68057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68058 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68059 r = self.subregion(step, subregion) 
    68060 File
    68061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68062 packages/chimerax/map/volume.py", line 1558, in subregion 
    68063 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68064 AttributeError: 'NoneType' object has no attribute 'size' 
    68065  
    68066 AttributeError: 'NoneType' object has no attribute 'size' 
    68067  
    68068 File
    68069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68070 packages/chimerax/map/volume.py", line 1558, in subregion 
    68071 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68072  
    68073 See log for complete Python traceback. 
    68074  
    68075 Traceback (most recent call last): 
    68076 File
    68077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68078 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68079 drew = self.draw_new_frame() 
    68080 File
    68081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68082 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68083 surface.update_clip_caps(view) 
    68084 File
    68085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68086 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68087 subdivision = settings.clipping_cap_subdivision) 
    68088 File
    68089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68090 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68091 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68092 File
    68093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68094 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68095 cm.set_geometry(varray, narray, tarray) 
    68096 File
    68097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68098 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68099 arv() 
    68100 File
    68101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68102 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68103 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68104 File
    68105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68106 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68107 s.vertex_colors = self.vertex_colors(report_stats) 
    68108 File
    68109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68110 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68111 values, outside = self.volume_values() 
    68112 File
    68113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68114 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68115 return self.offset_values(v, n, tf) 
    68116 File
    68117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68118 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68119 values, outside = self.vertex_values(v, xf) 
    68120 File
    68121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68122 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68123 out_of_bounds_list = True) 
    68124 File
    68125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68126 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68127 subregion, step) 
    68128 File
    68129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68130 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68131 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68132 File
    68133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68134 packages/chimerax/map/volume.py", line 1243, in
    68135 matrix_indices_to_xyz_transform 
    68136 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68137 File
    68138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68139 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68140 r = self.subregion(step, subregion) 
    68141 File
    68142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68143 packages/chimerax/map/volume.py", line 1558, in subregion 
    68144 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68145 AttributeError: 'NoneType' object has no attribute 'size' 
    68146  
    68147 AttributeError: 'NoneType' object has no attribute 'size' 
    68148  
    68149 File
    68150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68151 packages/chimerax/map/volume.py", line 1558, in subregion 
    68152 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68153  
    68154 See log for complete Python traceback. 
    68155  
    68156 Traceback (most recent call last): 
    68157 File
    68158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68159 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68160 drew = self.draw_new_frame() 
    68161 File
    68162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68163 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68164 surface.update_clip_caps(view) 
    68165 File
    68166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68167 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68168 subdivision = settings.clipping_cap_subdivision) 
    68169 File
    68170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68171 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68172 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68173 File
    68174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68175 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68176 cm.set_geometry(varray, narray, tarray) 
    68177 File
    68178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68179 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68180 arv() 
    68181 File
    68182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68183 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68184 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68185 File
    68186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68187 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68188 s.vertex_colors = self.vertex_colors(report_stats) 
    68189 File
    68190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68191 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68192 values, outside = self.volume_values() 
    68193 File
    68194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68195 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68196 return self.offset_values(v, n, tf) 
    68197 File
    68198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68199 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68200 values, outside = self.vertex_values(v, xf) 
    68201 File
    68202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68203 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68204 out_of_bounds_list = True) 
    68205 File
    68206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68207 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68208 subregion, step) 
    68209 File
    68210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68211 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68212 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68213 File
    68214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68215 packages/chimerax/map/volume.py", line 1243, in
    68216 matrix_indices_to_xyz_transform 
    68217 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68218 File
    68219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68220 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68221 r = self.subregion(step, subregion) 
    68222 File
    68223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68224 packages/chimerax/map/volume.py", line 1558, in subregion 
    68225 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68226 AttributeError: 'NoneType' object has no attribute 'size' 
    68227  
    68228 AttributeError: 'NoneType' object has no attribute 'size' 
    68229  
    68230 File
    68231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68232 packages/chimerax/map/volume.py", line 1558, in subregion 
    68233 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68234  
    68235 See log for complete Python traceback. 
    68236  
    68237 Traceback (most recent call last): 
    68238 File
    68239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68240 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68241 drew = self.draw_new_frame() 
    68242 File
    68243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68244 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68245 surface.update_clip_caps(view) 
    68246 File
    68247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68248 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68249 subdivision = settings.clipping_cap_subdivision) 
    68250 File
    68251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68252 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68253 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68254 File
    68255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68256 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68257 cm.set_geometry(varray, narray, tarray) 
    68258 File
    68259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68260 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68261 arv() 
    68262 File
    68263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68264 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68265 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68266 File
    68267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68268 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68269 s.vertex_colors = self.vertex_colors(report_stats) 
    68270 File
    68271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68272 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68273 values, outside = self.volume_values() 
    68274 File
    68275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68276 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68277 return self.offset_values(v, n, tf) 
    68278 File
    68279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68280 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68281 values, outside = self.vertex_values(v, xf) 
    68282 File
    68283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68284 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68285 out_of_bounds_list = True) 
    68286 File
    68287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68288 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68289 subregion, step) 
    68290 File
    68291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68292 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68293 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68294 File
    68295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68296 packages/chimerax/map/volume.py", line 1243, in
    68297 matrix_indices_to_xyz_transform 
    68298 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68299 File
    68300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68301 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68302 r = self.subregion(step, subregion) 
    68303 File
    68304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68305 packages/chimerax/map/volume.py", line 1558, in subregion 
    68306 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68307 AttributeError: 'NoneType' object has no attribute 'size' 
    68308  
    68309 AttributeError: 'NoneType' object has no attribute 'size' 
    68310  
    68311 File
    68312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68313 packages/chimerax/map/volume.py", line 1558, in subregion 
    68314 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68315  
    68316 See log for complete Python traceback. 
    68317  
    68318 Traceback (most recent call last): 
    68319 File
    68320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68321 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68322 drew = self.draw_new_frame() 
    68323 File
    68324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68325 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68326 surface.update_clip_caps(view) 
    68327 File
    68328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68329 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68330 subdivision = settings.clipping_cap_subdivision) 
    68331 File
    68332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68333 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68334 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68335 File
    68336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68337 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68338 cm.set_geometry(varray, narray, tarray) 
    68339 File
    68340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68341 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68342 arv() 
    68343 File
    68344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68345 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68346 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68347 File
    68348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68349 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68350 s.vertex_colors = self.vertex_colors(report_stats) 
    68351 File
    68352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68353 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68354 values, outside = self.volume_values() 
    68355 File
    68356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68357 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68358 return self.offset_values(v, n, tf) 
    68359 File
    68360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68361 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68362 values, outside = self.vertex_values(v, xf) 
    68363 File
    68364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68365 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68366 out_of_bounds_list = True) 
    68367 File
    68368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68369 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68370 subregion, step) 
    68371 File
    68372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68373 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68374 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68375 File
    68376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68377 packages/chimerax/map/volume.py", line 1243, in
    68378 matrix_indices_to_xyz_transform 
    68379 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68380 File
    68381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68382 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68383 r = self.subregion(step, subregion) 
    68384 File
    68385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68386 packages/chimerax/map/volume.py", line 1558, in subregion 
    68387 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68388 AttributeError: 'NoneType' object has no attribute 'size' 
    68389  
    68390 AttributeError: 'NoneType' object has no attribute 'size' 
    68391  
    68392 File
    68393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68394 packages/chimerax/map/volume.py", line 1558, in subregion 
    68395 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68396  
    68397 See log for complete Python traceback. 
    68398  
    68399 Traceback (most recent call last): 
    68400 File
    68401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68402 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68403 drew = self.draw_new_frame() 
    68404 File
    68405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68406 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68407 surface.update_clip_caps(view) 
    68408 File
    68409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68410 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68411 subdivision = settings.clipping_cap_subdivision) 
    68412 File
    68413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68414 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68415 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68416 File
    68417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68418 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68419 cm.set_geometry(varray, narray, tarray) 
    68420 File
    68421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68422 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68423 arv() 
    68424 File
    68425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68426 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68427 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68428 File
    68429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68430 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68431 s.vertex_colors = self.vertex_colors(report_stats) 
    68432 File
    68433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68434 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68435 values, outside = self.volume_values() 
    68436 File
    68437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68438 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68439 return self.offset_values(v, n, tf) 
    68440 File
    68441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68442 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68443 values, outside = self.vertex_values(v, xf) 
    68444 File
    68445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68446 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68447 out_of_bounds_list = True) 
    68448 File
    68449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68450 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68451 subregion, step) 
    68452 File
    68453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68454 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68455 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68456 File
    68457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68458 packages/chimerax/map/volume.py", line 1243, in
    68459 matrix_indices_to_xyz_transform 
    68460 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68461 File
    68462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68463 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68464 r = self.subregion(step, subregion) 
    68465 File
    68466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68467 packages/chimerax/map/volume.py", line 1558, in subregion 
    68468 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68469 AttributeError: 'NoneType' object has no attribute 'size' 
    68470  
    68471 AttributeError: 'NoneType' object has no attribute 'size' 
    68472  
    68473 File
    68474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68475 packages/chimerax/map/volume.py", line 1558, in subregion 
    68476 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68477  
    68478 See log for complete Python traceback. 
    68479  
    68480 Traceback (most recent call last): 
    68481 File
    68482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68483 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68484 drew = self.draw_new_frame() 
    68485 File
    68486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68487 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68488 surface.update_clip_caps(view) 
    68489 File
    68490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68491 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68492 subdivision = settings.clipping_cap_subdivision) 
    68493 File
    68494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68495 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68496 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68497 File
    68498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68499 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68500 cm.set_geometry(varray, narray, tarray) 
    68501 File
    68502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68503 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68504 arv() 
    68505 File
    68506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68507 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68508 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68509 File
    68510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68511 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68512 s.vertex_colors = self.vertex_colors(report_stats) 
    68513 File
    68514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68515 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68516 values, outside = self.volume_values() 
    68517 File
    68518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68519 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68520 return self.offset_values(v, n, tf) 
    68521 File
    68522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68523 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68524 values, outside = self.vertex_values(v, xf) 
    68525 File
    68526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68527 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68528 out_of_bounds_list = True) 
    68529 File
    68530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68531 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68532 subregion, step) 
    68533 File
    68534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68535 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68536 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68537 File
    68538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68539 packages/chimerax/map/volume.py", line 1243, in
    68540 matrix_indices_to_xyz_transform 
    68541 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68542 File
    68543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68544 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68545 r = self.subregion(step, subregion) 
    68546 File
    68547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68548 packages/chimerax/map/volume.py", line 1558, in subregion 
    68549 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68550 AttributeError: 'NoneType' object has no attribute 'size' 
    68551  
    68552 AttributeError: 'NoneType' object has no attribute 'size' 
    68553  
    68554 File
    68555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68556 packages/chimerax/map/volume.py", line 1558, in subregion 
    68557 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68558  
    68559 See log for complete Python traceback. 
    68560  
    68561 Traceback (most recent call last): 
    68562 File
    68563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68564 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68565 drew = self.draw_new_frame() 
    68566 File
    68567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68568 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68569 surface.update_clip_caps(view) 
    68570 File
    68571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68572 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68573 subdivision = settings.clipping_cap_subdivision) 
    68574 File
    68575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68576 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68577 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68578 File
    68579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68580 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68581 cm.set_geometry(varray, narray, tarray) 
    68582 File
    68583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68584 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68585 arv() 
    68586 File
    68587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68588 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68589 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68590 File
    68591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68592 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68593 s.vertex_colors = self.vertex_colors(report_stats) 
    68594 File
    68595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68596 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68597 values, outside = self.volume_values() 
    68598 File
    68599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68600 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68601 return self.offset_values(v, n, tf) 
    68602 File
    68603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68604 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68605 values, outside = self.vertex_values(v, xf) 
    68606 File
    68607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68608 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68609 out_of_bounds_list = True) 
    68610 File
    68611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68612 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68613 subregion, step) 
    68614 File
    68615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68616 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68617 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68618 File
    68619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68620 packages/chimerax/map/volume.py", line 1243, in
    68621 matrix_indices_to_xyz_transform 
    68622 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68623 File
    68624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68625 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68626 r = self.subregion(step, subregion) 
    68627 File
    68628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68629 packages/chimerax/map/volume.py", line 1558, in subregion 
    68630 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68631 AttributeError: 'NoneType' object has no attribute 'size' 
    68632  
    68633 AttributeError: 'NoneType' object has no attribute 'size' 
    68634  
    68635 File
    68636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68637 packages/chimerax/map/volume.py", line 1558, in subregion 
    68638 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68639  
    68640 See log for complete Python traceback. 
    68641  
    68642 Traceback (most recent call last): 
    68643 File
    68644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68645 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68646 drew = self.draw_new_frame() 
    68647 File
    68648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68649 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68650 surface.update_clip_caps(view) 
    68651 File
    68652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68653 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68654 subdivision = settings.clipping_cap_subdivision) 
    68655 File
    68656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68657 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68658 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68659 File
    68660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68661 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68662 cm.set_geometry(varray, narray, tarray) 
    68663 File
    68664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68665 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68666 arv() 
    68667 File
    68668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68669 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68670 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68671 File
    68672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68673 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68674 s.vertex_colors = self.vertex_colors(report_stats) 
    68675 File
    68676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68677 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68678 values, outside = self.volume_values() 
    68679 File
    68680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68681 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68682 return self.offset_values(v, n, tf) 
    68683 File
    68684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68685 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68686 values, outside = self.vertex_values(v, xf) 
    68687 File
    68688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68689 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68690 out_of_bounds_list = True) 
    68691 File
    68692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68693 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68694 subregion, step) 
    68695 File
    68696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68697 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68698 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68699 File
    68700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68701 packages/chimerax/map/volume.py", line 1243, in
    68702 matrix_indices_to_xyz_transform 
    68703 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68704 File
    68705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68706 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68707 r = self.subregion(step, subregion) 
    68708 File
    68709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68710 packages/chimerax/map/volume.py", line 1558, in subregion 
    68711 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68712 AttributeError: 'NoneType' object has no attribute 'size' 
    68713  
    68714 AttributeError: 'NoneType' object has no attribute 'size' 
    68715  
    68716 File
    68717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68718 packages/chimerax/map/volume.py", line 1558, in subregion 
    68719 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68720  
    68721 See log for complete Python traceback. 
    68722  
    68723 Traceback (most recent call last): 
    68724 File
    68725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68726 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68727 drew = self.draw_new_frame() 
    68728 File
    68729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68730 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68731 surface.update_clip_caps(view) 
    68732 File
    68733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68734 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68735 subdivision = settings.clipping_cap_subdivision) 
    68736 File
    68737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68738 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68739 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68740 File
    68741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68742 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68743 cm.set_geometry(varray, narray, tarray) 
    68744 File
    68745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68746 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68747 arv() 
    68748 File
    68749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68750 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68751 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68752 File
    68753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68754 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68755 s.vertex_colors = self.vertex_colors(report_stats) 
    68756 File
    68757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68758 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68759 values, outside = self.volume_values() 
    68760 File
    68761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68762 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68763 return self.offset_values(v, n, tf) 
    68764 File
    68765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68766 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68767 values, outside = self.vertex_values(v, xf) 
    68768 File
    68769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68770 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68771 out_of_bounds_list = True) 
    68772 File
    68773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68774 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68775 subregion, step) 
    68776 File
    68777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68778 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68779 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68780 File
    68781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68782 packages/chimerax/map/volume.py", line 1243, in
    68783 matrix_indices_to_xyz_transform 
    68784 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68785 File
    68786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68787 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68788 r = self.subregion(step, subregion) 
    68789 File
    68790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68791 packages/chimerax/map/volume.py", line 1558, in subregion 
    68792 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68793 AttributeError: 'NoneType' object has no attribute 'size' 
    68794  
    68795 AttributeError: 'NoneType' object has no attribute 'size' 
    68796  
    68797 File
    68798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68799 packages/chimerax/map/volume.py", line 1558, in subregion 
    68800 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68801  
    68802 See log for complete Python traceback. 
    68803  
    68804 Traceback (most recent call last): 
    68805 File
    68806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68807 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68808 drew = self.draw_new_frame() 
    68809 File
    68810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68811 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68812 surface.update_clip_caps(view) 
    68813 File
    68814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68815 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68816 subdivision = settings.clipping_cap_subdivision) 
    68817 File
    68818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68819 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68820 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68821 File
    68822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68823 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68824 cm.set_geometry(varray, narray, tarray) 
    68825 File
    68826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68827 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68828 arv() 
    68829 File
    68830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68831 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68832 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68833 File
    68834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68835 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68836 s.vertex_colors = self.vertex_colors(report_stats) 
    68837 File
    68838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68839 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68840 values, outside = self.volume_values() 
    68841 File
    68842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68843 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68844 return self.offset_values(v, n, tf) 
    68845 File
    68846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68847 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68848 values, outside = self.vertex_values(v, xf) 
    68849 File
    68850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68851 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68852 out_of_bounds_list = True) 
    68853 File
    68854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68855 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68856 subregion, step) 
    68857 File
    68858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68859 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68860 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68861 File
    68862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68863 packages/chimerax/map/volume.py", line 1243, in
    68864 matrix_indices_to_xyz_transform 
    68865 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68866 File
    68867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68868 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68869 r = self.subregion(step, subregion) 
    68870 File
    68871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68872 packages/chimerax/map/volume.py", line 1558, in subregion 
    68873 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68874 AttributeError: 'NoneType' object has no attribute 'size' 
    68875  
    68876 AttributeError: 'NoneType' object has no attribute 'size' 
    68877  
    68878 File
    68879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68880 packages/chimerax/map/volume.py", line 1558, in subregion 
    68881 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68882  
    68883 See log for complete Python traceback. 
    68884  
    68885 Traceback (most recent call last): 
    68886 File
    68887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68888 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68889 drew = self.draw_new_frame() 
    68890 File
    68891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68892 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68893 surface.update_clip_caps(view) 
    68894 File
    68895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68896 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68897 subdivision = settings.clipping_cap_subdivision) 
    68898 File
    68899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68900 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68901 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68902 File
    68903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68904 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68905 cm.set_geometry(varray, narray, tarray) 
    68906 File
    68907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68908 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68909 arv() 
    68910 File
    68911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68912 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68913 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68914 File
    68915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68916 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68917 s.vertex_colors = self.vertex_colors(report_stats) 
    68918 File
    68919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68920 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    68921 values, outside = self.volume_values() 
    68922 File
    68923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68924 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    68925 return self.offset_values(v, n, tf) 
    68926 File
    68927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68928 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    68929 values, outside = self.vertex_values(v, xf) 
    68930 File
    68931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68932 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    68933 out_of_bounds_list = True) 
    68934 File
    68935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68936 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    68937 subregion, step) 
    68938 File
    68939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68940 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    68941 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    68942 File
    68943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68944 packages/chimerax/map/volume.py", line 1243, in
    68945 matrix_indices_to_xyz_transform 
    68946 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    68947 File
    68948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68949 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    68950 r = self.subregion(step, subregion) 
    68951 File
    68952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68953 packages/chimerax/map/volume.py", line 1558, in subregion 
    68954 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68955 AttributeError: 'NoneType' object has no attribute 'size' 
    68956  
    68957 AttributeError: 'NoneType' object has no attribute 'size' 
    68958  
    68959 File
    68960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68961 packages/chimerax/map/volume.py", line 1558, in subregion 
    68962 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    68963  
    68964 See log for complete Python traceback. 
    68965  
    68966 Traceback (most recent call last): 
    68967 File
    68968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68969 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    68970 drew = self.draw_new_frame() 
    68971 File
    68972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68973 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    68974 surface.update_clip_caps(view) 
    68975 File
    68976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68977 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    68978 subdivision = settings.clipping_cap_subdivision) 
    68979 File
    68980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68981 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    68982 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    68983 File
    68984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68985 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    68986 cm.set_geometry(varray, narray, tarray) 
    68987 File
    68988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68989 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    68990 arv() 
    68991 File
    68992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68993 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    68994 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    68995 File
    68996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    68997 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    68998 s.vertex_colors = self.vertex_colors(report_stats) 
    68999 File
    69000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69001 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69002 values, outside = self.volume_values() 
    69003 File
    69004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69005 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69006 return self.offset_values(v, n, tf) 
    69007 File
    69008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69009 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69010 values, outside = self.vertex_values(v, xf) 
    69011 File
    69012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69013 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69014 out_of_bounds_list = True) 
    69015 File
    69016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69017 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69018 subregion, step) 
    69019 File
    69020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69021 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69022 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69023 File
    69024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69025 packages/chimerax/map/volume.py", line 1243, in
    69026 matrix_indices_to_xyz_transform 
    69027 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69028 File
    69029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69030 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69031 r = self.subregion(step, subregion) 
    69032 File
    69033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69034 packages/chimerax/map/volume.py", line 1558, in subregion 
    69035 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69036 AttributeError: 'NoneType' object has no attribute 'size' 
    69037  
    69038 AttributeError: 'NoneType' object has no attribute 'size' 
    69039  
    69040 File
    69041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69042 packages/chimerax/map/volume.py", line 1558, in subregion 
    69043 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69044  
    69045 See log for complete Python traceback. 
    69046  
    69047 Traceback (most recent call last): 
    69048 File
    69049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69050 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69051 drew = self.draw_new_frame() 
    69052 File
    69053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69054 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69055 surface.update_clip_caps(view) 
    69056 File
    69057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69058 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69059 subdivision = settings.clipping_cap_subdivision) 
    69060 File
    69061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69062 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69063 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69064 File
    69065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69066 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69067 cm.set_geometry(varray, narray, tarray) 
    69068 File
    69069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69070 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69071 arv() 
    69072 File
    69073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69074 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69075 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69076 File
    69077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69078 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69079 s.vertex_colors = self.vertex_colors(report_stats) 
    69080 File
    69081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69082 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69083 values, outside = self.volume_values() 
    69084 File
    69085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69086 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69087 return self.offset_values(v, n, tf) 
    69088 File
    69089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69090 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69091 values, outside = self.vertex_values(v, xf) 
    69092 File
    69093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69094 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69095 out_of_bounds_list = True) 
    69096 File
    69097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69098 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69099 subregion, step) 
    69100 File
    69101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69102 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69103 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69104 File
    69105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69106 packages/chimerax/map/volume.py", line 1243, in
    69107 matrix_indices_to_xyz_transform 
    69108 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69109 File
    69110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69111 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69112 r = self.subregion(step, subregion) 
    69113 File
    69114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69115 packages/chimerax/map/volume.py", line 1558, in subregion 
    69116 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69117 AttributeError: 'NoneType' object has no attribute 'size' 
    69118  
    69119 AttributeError: 'NoneType' object has no attribute 'size' 
    69120  
    69121 File
    69122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69123 packages/chimerax/map/volume.py", line 1558, in subregion 
    69124 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69125  
    69126 See log for complete Python traceback. 
    69127  
    69128 Traceback (most recent call last): 
    69129 File
    69130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69131 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69132 drew = self.draw_new_frame() 
    69133 File
    69134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69135 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69136 surface.update_clip_caps(view) 
    69137 File
    69138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69139 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69140 subdivision = settings.clipping_cap_subdivision) 
    69141 File
    69142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69143 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69144 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69145 File
    69146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69147 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69148 cm.set_geometry(varray, narray, tarray) 
    69149 File
    69150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69151 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69152 arv() 
    69153 File
    69154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69155 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69156 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69157 File
    69158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69159 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69160 s.vertex_colors = self.vertex_colors(report_stats) 
    69161 File
    69162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69163 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69164 values, outside = self.volume_values() 
    69165 File
    69166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69167 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69168 return self.offset_values(v, n, tf) 
    69169 File
    69170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69171 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69172 values, outside = self.vertex_values(v, xf) 
    69173 File
    69174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69175 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69176 out_of_bounds_list = True) 
    69177 File
    69178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69179 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69180 subregion, step) 
    69181 File
    69182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69183 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69184 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69185 File
    69186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69187 packages/chimerax/map/volume.py", line 1243, in
    69188 matrix_indices_to_xyz_transform 
    69189 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69190 File
    69191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69192 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69193 r = self.subregion(step, subregion) 
    69194 File
    69195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69196 packages/chimerax/map/volume.py", line 1558, in subregion 
    69197 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69198 AttributeError: 'NoneType' object has no attribute 'size' 
    69199  
    69200 AttributeError: 'NoneType' object has no attribute 'size' 
    69201  
    69202 File
    69203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69204 packages/chimerax/map/volume.py", line 1558, in subregion 
    69205 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69206  
    69207 See log for complete Python traceback. 
    69208  
    69209 Traceback (most recent call last): 
    69210 File
    69211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69212 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69213 drew = self.draw_new_frame() 
    69214 File
    69215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69216 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69217 surface.update_clip_caps(view) 
    69218 File
    69219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69220 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69221 subdivision = settings.clipping_cap_subdivision) 
    69222 File
    69223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69224 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69225 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69226 File
    69227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69228 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69229 cm.set_geometry(varray, narray, tarray) 
    69230 File
    69231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69232 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69233 arv() 
    69234 File
    69235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69236 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69237 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69238 File
    69239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69240 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69241 s.vertex_colors = self.vertex_colors(report_stats) 
    69242 File
    69243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69244 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69245 values, outside = self.volume_values() 
    69246 File
    69247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69248 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69249 return self.offset_values(v, n, tf) 
    69250 File
    69251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69252 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69253 values, outside = self.vertex_values(v, xf) 
    69254 File
    69255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69256 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69257 out_of_bounds_list = True) 
    69258 File
    69259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69260 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69261 subregion, step) 
    69262 File
    69263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69264 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69265 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69266 File
    69267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69268 packages/chimerax/map/volume.py", line 1243, in
    69269 matrix_indices_to_xyz_transform 
    69270 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69271 File
    69272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69273 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69274 r = self.subregion(step, subregion) 
    69275 File
    69276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69277 packages/chimerax/map/volume.py", line 1558, in subregion 
    69278 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69279 AttributeError: 'NoneType' object has no attribute 'size' 
    69280  
    69281 AttributeError: 'NoneType' object has no attribute 'size' 
    69282  
    69283 File
    69284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69285 packages/chimerax/map/volume.py", line 1558, in subregion 
    69286 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69287  
    69288 See log for complete Python traceback. 
    69289  
    69290 Traceback (most recent call last): 
    69291 File
    69292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69293 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69294 drew = self.draw_new_frame() 
    69295 File
    69296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69297 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69298 surface.update_clip_caps(view) 
    69299 File
    69300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69301 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69302 subdivision = settings.clipping_cap_subdivision) 
    69303 File
    69304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69305 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69306 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69307 File
    69308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69309 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69310 cm.set_geometry(varray, narray, tarray) 
    69311 File
    69312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69313 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69314 arv() 
    69315 File
    69316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69317 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69318 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69319 File
    69320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69321 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69322 s.vertex_colors = self.vertex_colors(report_stats) 
    69323 File
    69324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69325 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69326 values, outside = self.volume_values() 
    69327 File
    69328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69329 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69330 return self.offset_values(v, n, tf) 
    69331 File
    69332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69333 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69334 values, outside = self.vertex_values(v, xf) 
    69335 File
    69336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69337 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69338 out_of_bounds_list = True) 
    69339 File
    69340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69341 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69342 subregion, step) 
    69343 File
    69344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69345 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69346 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69347 File
    69348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69349 packages/chimerax/map/volume.py", line 1243, in
    69350 matrix_indices_to_xyz_transform 
    69351 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69352 File
    69353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69354 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69355 r = self.subregion(step, subregion) 
    69356 File
    69357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69358 packages/chimerax/map/volume.py", line 1558, in subregion 
    69359 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69360 AttributeError: 'NoneType' object has no attribute 'size' 
    69361  
    69362 AttributeError: 'NoneType' object has no attribute 'size' 
    69363  
    69364 File
    69365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69366 packages/chimerax/map/volume.py", line 1558, in subregion 
    69367 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69368  
    69369 See log for complete Python traceback. 
    69370  
    69371 Traceback (most recent call last): 
    69372 File
    69373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69374 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69375 drew = self.draw_new_frame() 
    69376 File
    69377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69378 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69379 surface.update_clip_caps(view) 
    69380 File
    69381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69382 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69383 subdivision = settings.clipping_cap_subdivision) 
    69384 File
    69385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69386 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69387 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69388 File
    69389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69390 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69391 cm.set_geometry(varray, narray, tarray) 
    69392 File
    69393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69394 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69395 arv() 
    69396 File
    69397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69398 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69399 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69400 File
    69401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69402 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69403 s.vertex_colors = self.vertex_colors(report_stats) 
    69404 File
    69405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69406 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69407 values, outside = self.volume_values() 
    69408 File
    69409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69410 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69411 return self.offset_values(v, n, tf) 
    69412 File
    69413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69414 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69415 values, outside = self.vertex_values(v, xf) 
    69416 File
    69417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69418 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69419 out_of_bounds_list = True) 
    69420 File
    69421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69422 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69423 subregion, step) 
    69424 File
    69425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69426 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69427 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69428 File
    69429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69430 packages/chimerax/map/volume.py", line 1243, in
    69431 matrix_indices_to_xyz_transform 
    69432 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69433 File
    69434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69435 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69436 r = self.subregion(step, subregion) 
    69437 File
    69438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69439 packages/chimerax/map/volume.py", line 1558, in subregion 
    69440 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69441 AttributeError: 'NoneType' object has no attribute 'size' 
    69442  
    69443 AttributeError: 'NoneType' object has no attribute 'size' 
    69444  
    69445 File
    69446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69447 packages/chimerax/map/volume.py", line 1558, in subregion 
    69448 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69449  
    69450 See log for complete Python traceback. 
    69451  
    69452 Traceback (most recent call last): 
    69453 File
    69454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69455 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69456 drew = self.draw_new_frame() 
    69457 File
    69458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69459 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69460 surface.update_clip_caps(view) 
    69461 File
    69462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69463 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69464 subdivision = settings.clipping_cap_subdivision) 
    69465 File
    69466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69467 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69468 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69469 File
    69470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69471 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69472 cm.set_geometry(varray, narray, tarray) 
    69473 File
    69474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69475 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69476 arv() 
    69477 File
    69478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69479 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69480 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69481 File
    69482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69483 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69484 s.vertex_colors = self.vertex_colors(report_stats) 
    69485 File
    69486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69487 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69488 values, outside = self.volume_values() 
    69489 File
    69490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69491 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69492 return self.offset_values(v, n, tf) 
    69493 File
    69494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69495 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69496 values, outside = self.vertex_values(v, xf) 
    69497 File
    69498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69499 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69500 out_of_bounds_list = True) 
    69501 File
    69502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69503 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69504 subregion, step) 
    69505 File
    69506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69507 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69508 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69509 File
    69510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69511 packages/chimerax/map/volume.py", line 1243, in
    69512 matrix_indices_to_xyz_transform 
    69513 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69514 File
    69515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69516 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69517 r = self.subregion(step, subregion) 
    69518 File
    69519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69520 packages/chimerax/map/volume.py", line 1558, in subregion 
    69521 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69522 AttributeError: 'NoneType' object has no attribute 'size' 
    69523  
    69524 AttributeError: 'NoneType' object has no attribute 'size' 
    69525  
    69526 File
    69527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69528 packages/chimerax/map/volume.py", line 1558, in subregion 
    69529 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69530  
    69531 See log for complete Python traceback. 
    69532  
    69533 Traceback (most recent call last): 
    69534 File
    69535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69536 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69537 drew = self.draw_new_frame() 
    69538 File
    69539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69540 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69541 surface.update_clip_caps(view) 
    69542 File
    69543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69544 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69545 subdivision = settings.clipping_cap_subdivision) 
    69546 File
    69547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69548 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69549 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69550 File
    69551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69552 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69553 cm.set_geometry(varray, narray, tarray) 
    69554 File
    69555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69556 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69557 arv() 
    69558 File
    69559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69560 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69561 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69562 File
    69563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69564 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69565 s.vertex_colors = self.vertex_colors(report_stats) 
    69566 File
    69567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69568 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69569 values, outside = self.volume_values() 
    69570 File
    69571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69572 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69573 return self.offset_values(v, n, tf) 
    69574 File
    69575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69576 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69577 values, outside = self.vertex_values(v, xf) 
    69578 File
    69579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69580 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69581 out_of_bounds_list = True) 
    69582 File
    69583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69584 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69585 subregion, step) 
    69586 File
    69587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69588 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69589 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69590 File
    69591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69592 packages/chimerax/map/volume.py", line 1243, in
    69593 matrix_indices_to_xyz_transform 
    69594 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69595 File
    69596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69597 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69598 r = self.subregion(step, subregion) 
    69599 File
    69600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69601 packages/chimerax/map/volume.py", line 1558, in subregion 
    69602 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69603 AttributeError: 'NoneType' object has no attribute 'size' 
    69604  
    69605 AttributeError: 'NoneType' object has no attribute 'size' 
    69606  
    69607 File
    69608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69609 packages/chimerax/map/volume.py", line 1558, in subregion 
    69610 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69611  
    69612 See log for complete Python traceback. 
    69613  
    69614 Traceback (most recent call last): 
    69615 File
    69616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69617 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69618 drew = self.draw_new_frame() 
    69619 File
    69620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69621 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69622 surface.update_clip_caps(view) 
    69623 File
    69624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69625 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69626 subdivision = settings.clipping_cap_subdivision) 
    69627 File
    69628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69629 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69630 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69631 File
    69632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69633 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69634 cm.set_geometry(varray, narray, tarray) 
    69635 File
    69636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69637 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69638 arv() 
    69639 File
    69640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69641 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69642 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69643 File
    69644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69645 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69646 s.vertex_colors = self.vertex_colors(report_stats) 
    69647 File
    69648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69649 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69650 values, outside = self.volume_values() 
    69651 File
    69652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69653 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69654 return self.offset_values(v, n, tf) 
    69655 File
    69656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69657 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69658 values, outside = self.vertex_values(v, xf) 
    69659 File
    69660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69661 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69662 out_of_bounds_list = True) 
    69663 File
    69664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69665 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69666 subregion, step) 
    69667 File
    69668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69669 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69670 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69671 File
    69672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69673 packages/chimerax/map/volume.py", line 1243, in
    69674 matrix_indices_to_xyz_transform 
    69675 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69676 File
    69677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69678 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69679 r = self.subregion(step, subregion) 
    69680 File
    69681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69682 packages/chimerax/map/volume.py", line 1558, in subregion 
    69683 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69684 AttributeError: 'NoneType' object has no attribute 'size' 
    69685  
    69686 AttributeError: 'NoneType' object has no attribute 'size' 
    69687  
    69688 File
    69689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69690 packages/chimerax/map/volume.py", line 1558, in subregion 
    69691 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69692  
    69693 See log for complete Python traceback. 
    69694  
    69695 Traceback (most recent call last): 
    69696 File
    69697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69698 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69699 drew = self.draw_new_frame() 
    69700 File
    69701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69702 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69703 surface.update_clip_caps(view) 
    69704 File
    69705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69706 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69707 subdivision = settings.clipping_cap_subdivision) 
    69708 File
    69709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69710 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69711 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69712 File
    69713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69714 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69715 cm.set_geometry(varray, narray, tarray) 
    69716 File
    69717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69718 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69719 arv() 
    69720 File
    69721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69722 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69723 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69724 File
    69725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69726 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69727 s.vertex_colors = self.vertex_colors(report_stats) 
    69728 File
    69729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69730 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69731 values, outside = self.volume_values() 
    69732 File
    69733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69734 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69735 return self.offset_values(v, n, tf) 
    69736 File
    69737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69738 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69739 values, outside = self.vertex_values(v, xf) 
    69740 File
    69741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69742 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69743 out_of_bounds_list = True) 
    69744 File
    69745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69746 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69747 subregion, step) 
    69748 File
    69749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69750 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69751 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69752 File
    69753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69754 packages/chimerax/map/volume.py", line 1243, in
    69755 matrix_indices_to_xyz_transform 
    69756 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69757 File
    69758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69759 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69760 r = self.subregion(step, subregion) 
    69761 File
    69762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69763 packages/chimerax/map/volume.py", line 1558, in subregion 
    69764 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69765 AttributeError: 'NoneType' object has no attribute 'size' 
    69766  
    69767 AttributeError: 'NoneType' object has no attribute 'size' 
    69768  
    69769 File
    69770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69771 packages/chimerax/map/volume.py", line 1558, in subregion 
    69772 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69773  
    69774 See log for complete Python traceback. 
    69775  
    69776 Traceback (most recent call last): 
    69777 File
    69778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69779 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69780 drew = self.draw_new_frame() 
    69781 File
    69782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69783 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69784 surface.update_clip_caps(view) 
    69785 File
    69786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69787 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69788 subdivision = settings.clipping_cap_subdivision) 
    69789 File
    69790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69791 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69792 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69793 File
    69794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69795 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69796 cm.set_geometry(varray, narray, tarray) 
    69797 File
    69798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69799 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69800 arv() 
    69801 File
    69802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69803 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69804 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69805 File
    69806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69807 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69808 s.vertex_colors = self.vertex_colors(report_stats) 
    69809 File
    69810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69811 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69812 values, outside = self.volume_values() 
    69813 File
    69814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69815 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69816 return self.offset_values(v, n, tf) 
    69817 File
    69818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69819 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69820 values, outside = self.vertex_values(v, xf) 
    69821 File
    69822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69823 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69824 out_of_bounds_list = True) 
    69825 File
    69826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69827 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69828 subregion, step) 
    69829 File
    69830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69831 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69832 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69833 File
    69834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69835 packages/chimerax/map/volume.py", line 1243, in
    69836 matrix_indices_to_xyz_transform 
    69837 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69838 File
    69839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69840 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69841 r = self.subregion(step, subregion) 
    69842 File
    69843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69844 packages/chimerax/map/volume.py", line 1558, in subregion 
    69845 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69846 AttributeError: 'NoneType' object has no attribute 'size' 
    69847  
    69848 AttributeError: 'NoneType' object has no attribute 'size' 
    69849  
    69850 File
    69851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69852 packages/chimerax/map/volume.py", line 1558, in subregion 
    69853 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69854  
    69855 See log for complete Python traceback. 
    69856  
    69857 Traceback (most recent call last): 
    69858 File
    69859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69860 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69861 drew = self.draw_new_frame() 
    69862 File
    69863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69864 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69865 surface.update_clip_caps(view) 
    69866 File
    69867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69868 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69869 subdivision = settings.clipping_cap_subdivision) 
    69870 File
    69871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69872 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69873 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69874 File
    69875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69876 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69877 cm.set_geometry(varray, narray, tarray) 
    69878 File
    69879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69880 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69881 arv() 
    69882 File
    69883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69884 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69885 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69886 File
    69887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69888 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69889 s.vertex_colors = self.vertex_colors(report_stats) 
    69890 File
    69891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69892 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69893 values, outside = self.volume_values() 
    69894 File
    69895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69896 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69897 return self.offset_values(v, n, tf) 
    69898 File
    69899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69900 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69901 values, outside = self.vertex_values(v, xf) 
    69902 File
    69903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69904 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69905 out_of_bounds_list = True) 
    69906 File
    69907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69908 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69909 subregion, step) 
    69910 File
    69911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69912 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69913 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69914 File
    69915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69916 packages/chimerax/map/volume.py", line 1243, in
    69917 matrix_indices_to_xyz_transform 
    69918 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    69919 File
    69920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69921 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    69922 r = self.subregion(step, subregion) 
    69923 File
    69924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69925 packages/chimerax/map/volume.py", line 1558, in subregion 
    69926 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69927 AttributeError: 'NoneType' object has no attribute 'size' 
    69928  
    69929 AttributeError: 'NoneType' object has no attribute 'size' 
    69930  
    69931 File
    69932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69933 packages/chimerax/map/volume.py", line 1558, in subregion 
    69934 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    69935  
    69936 See log for complete Python traceback. 
    69937  
    69938 Traceback (most recent call last): 
    69939 File
    69940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69941 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    69942 drew = self.draw_new_frame() 
    69943 File
    69944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69945 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    69946 surface.update_clip_caps(view) 
    69947 File
    69948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69949 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    69950 subdivision = settings.clipping_cap_subdivision) 
    69951 File
    69952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69953 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    69954 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    69955 File
    69956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69957 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    69958 cm.set_geometry(varray, narray, tarray) 
    69959 File
    69960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69961 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    69962 arv() 
    69963 File
    69964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69965 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    69966 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    69967 File
    69968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69969 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    69970 s.vertex_colors = self.vertex_colors(report_stats) 
    69971 File
    69972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69973 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    69974 values, outside = self.volume_values() 
    69975 File
    69976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69977 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    69978 return self.offset_values(v, n, tf) 
    69979 File
    69980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69981 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    69982 values, outside = self.vertex_values(v, xf) 
    69983 File
    69984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69985 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    69986 out_of_bounds_list = True) 
    69987 File
    69988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69989 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    69990 subregion, step) 
    69991 File
    69992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69993 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    69994 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    69995 File
    69996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    69997 packages/chimerax/map/volume.py", line 1243, in
    69998 matrix_indices_to_xyz_transform 
    69999 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70000 File
    70001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70002 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70003 r = self.subregion(step, subregion) 
    70004 File
    70005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70006 packages/chimerax/map/volume.py", line 1558, in subregion 
    70007 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70008 AttributeError: 'NoneType' object has no attribute 'size' 
    70009  
    70010 AttributeError: 'NoneType' object has no attribute 'size' 
    70011  
    70012 File
    70013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70014 packages/chimerax/map/volume.py", line 1558, in subregion 
    70015 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70016  
    70017 See log for complete Python traceback. 
    70018  
    70019 Traceback (most recent call last): 
    70020 File
    70021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70022 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70023 drew = self.draw_new_frame() 
    70024 File
    70025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70026 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70027 surface.update_clip_caps(view) 
    70028 File
    70029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70030 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70031 subdivision = settings.clipping_cap_subdivision) 
    70032 File
    70033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70034 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70035 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70036 File
    70037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70038 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70039 cm.set_geometry(varray, narray, tarray) 
    70040 File
    70041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70042 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70043 arv() 
    70044 File
    70045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70046 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70047 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70048 File
    70049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70050 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70051 s.vertex_colors = self.vertex_colors(report_stats) 
    70052 File
    70053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70054 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70055 values, outside = self.volume_values() 
    70056 File
    70057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70058 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70059 return self.offset_values(v, n, tf) 
    70060 File
    70061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70062 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70063 values, outside = self.vertex_values(v, xf) 
    70064 File
    70065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70066 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70067 out_of_bounds_list = True) 
    70068 File
    70069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70070 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70071 subregion, step) 
    70072 File
    70073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70074 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70075 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70076 File
    70077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70078 packages/chimerax/map/volume.py", line 1243, in
    70079 matrix_indices_to_xyz_transform 
    70080 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70081 File
    70082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70083 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70084 r = self.subregion(step, subregion) 
    70085 File
    70086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70087 packages/chimerax/map/volume.py", line 1558, in subregion 
    70088 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70089 AttributeError: 'NoneType' object has no attribute 'size' 
    70090  
    70091 AttributeError: 'NoneType' object has no attribute 'size' 
    70092  
    70093 File
    70094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70095 packages/chimerax/map/volume.py", line 1558, in subregion 
    70096 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70097  
    70098 See log for complete Python traceback. 
    70099  
    70100 Traceback (most recent call last): 
    70101 File
    70102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70103 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70104 drew = self.draw_new_frame() 
    70105 File
    70106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70107 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70108 surface.update_clip_caps(view) 
    70109 File
    70110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70111 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70112 subdivision = settings.clipping_cap_subdivision) 
    70113 File
    70114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70115 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70116 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70117 File
    70118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70119 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70120 cm.set_geometry(varray, narray, tarray) 
    70121 File
    70122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70123 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70124 arv() 
    70125 File
    70126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70127 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70128 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70129 File
    70130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70131 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70132 s.vertex_colors = self.vertex_colors(report_stats) 
    70133 File
    70134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70135 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70136 values, outside = self.volume_values() 
    70137 File
    70138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70139 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70140 return self.offset_values(v, n, tf) 
    70141 File
    70142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70143 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70144 values, outside = self.vertex_values(v, xf) 
    70145 File
    70146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70147 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70148 out_of_bounds_list = True) 
    70149 File
    70150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70151 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70152 subregion, step) 
    70153 File
    70154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70155 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70156 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70157 File
    70158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70159 packages/chimerax/map/volume.py", line 1243, in
    70160 matrix_indices_to_xyz_transform 
    70161 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70162 File
    70163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70164 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70165 r = self.subregion(step, subregion) 
    70166 File
    70167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70168 packages/chimerax/map/volume.py", line 1558, in subregion 
    70169 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70170 AttributeError: 'NoneType' object has no attribute 'size' 
    70171  
    70172 AttributeError: 'NoneType' object has no attribute 'size' 
    70173  
    70174 File
    70175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70176 packages/chimerax/map/volume.py", line 1558, in subregion 
    70177 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70178  
    70179 See log for complete Python traceback. 
    70180  
    70181 Traceback (most recent call last): 
    70182 File
    70183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70184 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70185 drew = self.draw_new_frame() 
    70186 File
    70187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70188 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70189 surface.update_clip_caps(view) 
    70190 File
    70191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70192 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70193 subdivision = settings.clipping_cap_subdivision) 
    70194 File
    70195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70196 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70197 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70198 File
    70199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70200 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70201 cm.set_geometry(varray, narray, tarray) 
    70202 File
    70203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70204 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70205 arv() 
    70206 File
    70207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70208 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70209 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70210 File
    70211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70212 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70213 s.vertex_colors = self.vertex_colors(report_stats) 
    70214 File
    70215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70216 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70217 values, outside = self.volume_values() 
    70218 File
    70219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70220 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70221 return self.offset_values(v, n, tf) 
    70222 File
    70223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70224 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70225 values, outside = self.vertex_values(v, xf) 
    70226 File
    70227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70228 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70229 out_of_bounds_list = True) 
    70230 File
    70231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70232 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70233 subregion, step) 
    70234 File
    70235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70236 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70237 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70238 File
    70239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70240 packages/chimerax/map/volume.py", line 1243, in
    70241 matrix_indices_to_xyz_transform 
    70242 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70243 File
    70244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70245 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70246 r = self.subregion(step, subregion) 
    70247 File
    70248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70249 packages/chimerax/map/volume.py", line 1558, in subregion 
    70250 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70251 AttributeError: 'NoneType' object has no attribute 'size' 
    70252  
    70253 AttributeError: 'NoneType' object has no attribute 'size' 
    70254  
    70255 File
    70256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70257 packages/chimerax/map/volume.py", line 1558, in subregion 
    70258 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70259  
    70260 See log for complete Python traceback. 
    70261  
    70262 Traceback (most recent call last): 
    70263 File
    70264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70265 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70266 drew = self.draw_new_frame() 
    70267 File
    70268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70269 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70270 surface.update_clip_caps(view) 
    70271 File
    70272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70273 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70274 subdivision = settings.clipping_cap_subdivision) 
    70275 File
    70276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70277 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70278 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70279 File
    70280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70281 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70282 cm.set_geometry(varray, narray, tarray) 
    70283 File
    70284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70285 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70286 arv() 
    70287 File
    70288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70289 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70290 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70291 File
    70292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70293 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70294 s.vertex_colors = self.vertex_colors(report_stats) 
    70295 File
    70296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70297 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70298 values, outside = self.volume_values() 
    70299 File
    70300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70301 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70302 return self.offset_values(v, n, tf) 
    70303 File
    70304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70305 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70306 values, outside = self.vertex_values(v, xf) 
    70307 File
    70308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70309 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70310 out_of_bounds_list = True) 
    70311 File
    70312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70313 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70314 subregion, step) 
    70315 File
    70316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70317 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70318 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70319 File
    70320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70321 packages/chimerax/map/volume.py", line 1243, in
    70322 matrix_indices_to_xyz_transform 
    70323 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70324 File
    70325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70326 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70327 r = self.subregion(step, subregion) 
    70328 File
    70329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70330 packages/chimerax/map/volume.py", line 1558, in subregion 
    70331 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70332 AttributeError: 'NoneType' object has no attribute 'size' 
    70333  
    70334 AttributeError: 'NoneType' object has no attribute 'size' 
    70335  
    70336 File
    70337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70338 packages/chimerax/map/volume.py", line 1558, in subregion 
    70339 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70340  
    70341 See log for complete Python traceback. 
    70342  
    70343 Traceback (most recent call last): 
    70344 File
    70345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70346 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70347 drew = self.draw_new_frame() 
    70348 File
    70349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70350 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70351 surface.update_clip_caps(view) 
    70352 File
    70353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70354 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70355 subdivision = settings.clipping_cap_subdivision) 
    70356 File
    70357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70358 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70359 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70360 File
    70361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70362 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70363 cm.set_geometry(varray, narray, tarray) 
    70364 File
    70365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70366 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70367 arv() 
    70368 File
    70369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70370 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70371 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70372 File
    70373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70374 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70375 s.vertex_colors = self.vertex_colors(report_stats) 
    70376 File
    70377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70378 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70379 values, outside = self.volume_values() 
    70380 File
    70381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70382 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70383 return self.offset_values(v, n, tf) 
    70384 File
    70385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70386 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70387 values, outside = self.vertex_values(v, xf) 
    70388 File
    70389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70390 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70391 out_of_bounds_list = True) 
    70392 File
    70393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70394 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70395 subregion, step) 
    70396 File
    70397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70398 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70399 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70400 File
    70401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70402 packages/chimerax/map/volume.py", line 1243, in
    70403 matrix_indices_to_xyz_transform 
    70404 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70405 File
    70406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70407 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70408 r = self.subregion(step, subregion) 
    70409 File
    70410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70411 packages/chimerax/map/volume.py", line 1558, in subregion 
    70412 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70413 AttributeError: 'NoneType' object has no attribute 'size' 
    70414  
    70415 AttributeError: 'NoneType' object has no attribute 'size' 
    70416  
    70417 File
    70418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70419 packages/chimerax/map/volume.py", line 1558, in subregion 
    70420 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70421  
    70422 See log for complete Python traceback. 
    70423  
    70424 Traceback (most recent call last): 
    70425 File
    70426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70427 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70428 drew = self.draw_new_frame() 
    70429 File
    70430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70431 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70432 surface.update_clip_caps(view) 
    70433 File
    70434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70435 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70436 subdivision = settings.clipping_cap_subdivision) 
    70437 File
    70438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70439 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70440 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70441 File
    70442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70443 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70444 cm.set_geometry(varray, narray, tarray) 
    70445 File
    70446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70447 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70448 arv() 
    70449 File
    70450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70451 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70452 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70453 File
    70454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70455 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70456 s.vertex_colors = self.vertex_colors(report_stats) 
    70457 File
    70458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70459 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70460 values, outside = self.volume_values() 
    70461 File
    70462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70463 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70464 return self.offset_values(v, n, tf) 
    70465 File
    70466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70467 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70468 values, outside = self.vertex_values(v, xf) 
    70469 File
    70470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70471 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70472 out_of_bounds_list = True) 
    70473 File
    70474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70475 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70476 subregion, step) 
    70477 File
    70478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70479 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70480 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70481 File
    70482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70483 packages/chimerax/map/volume.py", line 1243, in
    70484 matrix_indices_to_xyz_transform 
    70485 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70486 File
    70487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70488 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70489 r = self.subregion(step, subregion) 
    70490 File
    70491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70492 packages/chimerax/map/volume.py", line 1558, in subregion 
    70493 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70494 AttributeError: 'NoneType' object has no attribute 'size' 
    70495  
    70496 AttributeError: 'NoneType' object has no attribute 'size' 
    70497  
    70498 File
    70499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70500 packages/chimerax/map/volume.py", line 1558, in subregion 
    70501 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70502  
    70503 See log for complete Python traceback. 
    70504  
    70505 Traceback (most recent call last): 
    70506 File
    70507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70508 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70509 drew = self.draw_new_frame() 
    70510 File
    70511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70512 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70513 surface.update_clip_caps(view) 
    70514 File
    70515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70516 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70517 subdivision = settings.clipping_cap_subdivision) 
    70518 File
    70519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70520 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70521 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70522 File
    70523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70524 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70525 cm.set_geometry(varray, narray, tarray) 
    70526 File
    70527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70528 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70529 arv() 
    70530 File
    70531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70532 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70533 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70534 File
    70535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70536 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70537 s.vertex_colors = self.vertex_colors(report_stats) 
    70538 File
    70539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70540 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70541 values, outside = self.volume_values() 
    70542 File
    70543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70544 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70545 return self.offset_values(v, n, tf) 
    70546 File
    70547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70548 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70549 values, outside = self.vertex_values(v, xf) 
    70550 File
    70551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70552 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70553 out_of_bounds_list = True) 
    70554 File
    70555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70556 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70557 subregion, step) 
    70558 File
    70559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70560 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70561 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70562 File
    70563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70564 packages/chimerax/map/volume.py", line 1243, in
    70565 matrix_indices_to_xyz_transform 
    70566 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70567 File
    70568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70569 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70570 r = self.subregion(step, subregion) 
    70571 File
    70572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70573 packages/chimerax/map/volume.py", line 1558, in subregion 
    70574 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70575 AttributeError: 'NoneType' object has no attribute 'size' 
    70576  
    70577 AttributeError: 'NoneType' object has no attribute 'size' 
    70578  
    70579 File
    70580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70581 packages/chimerax/map/volume.py", line 1558, in subregion 
    70582 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70583  
    70584 See log for complete Python traceback. 
    70585  
    70586 Traceback (most recent call last): 
    70587 File
    70588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70589 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70590 drew = self.draw_new_frame() 
    70591 File
    70592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70593 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70594 surface.update_clip_caps(view) 
    70595 File
    70596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70597 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70598 subdivision = settings.clipping_cap_subdivision) 
    70599 File
    70600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70601 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70602 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70603 File
    70604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70605 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70606 cm.set_geometry(varray, narray, tarray) 
    70607 File
    70608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70609 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70610 arv() 
    70611 File
    70612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70613 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70614 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70615 File
    70616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70617 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70618 s.vertex_colors = self.vertex_colors(report_stats) 
    70619 File
    70620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70621 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70622 values, outside = self.volume_values() 
    70623 File
    70624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70625 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70626 return self.offset_values(v, n, tf) 
    70627 File
    70628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70629 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70630 values, outside = self.vertex_values(v, xf) 
    70631 File
    70632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70633 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70634 out_of_bounds_list = True) 
    70635 File
    70636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70637 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70638 subregion, step) 
    70639 File
    70640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70641 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70642 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70643 File
    70644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70645 packages/chimerax/map/volume.py", line 1243, in
    70646 matrix_indices_to_xyz_transform 
    70647 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70648 File
    70649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70650 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70651 r = self.subregion(step, subregion) 
    70652 File
    70653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70654 packages/chimerax/map/volume.py", line 1558, in subregion 
    70655 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70656 AttributeError: 'NoneType' object has no attribute 'size' 
    70657  
    70658 AttributeError: 'NoneType' object has no attribute 'size' 
    70659  
    70660 File
    70661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70662 packages/chimerax/map/volume.py", line 1558, in subregion 
    70663 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70664  
    70665 See log for complete Python traceback. 
    70666  
    70667 Traceback (most recent call last): 
    70668 File
    70669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70670 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70671 drew = self.draw_new_frame() 
    70672 File
    70673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70674 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70675 surface.update_clip_caps(view) 
    70676 File
    70677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70678 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70679 subdivision = settings.clipping_cap_subdivision) 
    70680 File
    70681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70682 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70683 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70684 File
    70685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70686 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70687 cm.set_geometry(varray, narray, tarray) 
    70688 File
    70689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70690 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70691 arv() 
    70692 File
    70693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70694 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70695 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70696 File
    70697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70698 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70699 s.vertex_colors = self.vertex_colors(report_stats) 
    70700 File
    70701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70702 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70703 values, outside = self.volume_values() 
    70704 File
    70705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70706 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70707 return self.offset_values(v, n, tf) 
    70708 File
    70709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70710 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70711 values, outside = self.vertex_values(v, xf) 
    70712 File
    70713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70714 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70715 out_of_bounds_list = True) 
    70716 File
    70717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70718 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70719 subregion, step) 
    70720 File
    70721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70722 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70723 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70724 File
    70725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70726 packages/chimerax/map/volume.py", line 1243, in
    70727 matrix_indices_to_xyz_transform 
    70728 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70729 File
    70730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70731 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70732 r = self.subregion(step, subregion) 
    70733 File
    70734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70735 packages/chimerax/map/volume.py", line 1558, in subregion 
    70736 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70737 AttributeError: 'NoneType' object has no attribute 'size' 
    70738  
    70739 AttributeError: 'NoneType' object has no attribute 'size' 
    70740  
    70741 File
    70742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70743 packages/chimerax/map/volume.py", line 1558, in subregion 
    70744 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70745  
    70746 See log for complete Python traceback. 
    70747  
    70748 Traceback (most recent call last): 
    70749 File
    70750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70751 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70752 drew = self.draw_new_frame() 
    70753 File
    70754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70755 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70756 surface.update_clip_caps(view) 
    70757 File
    70758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70759 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70760 subdivision = settings.clipping_cap_subdivision) 
    70761 File
    70762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70763 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70764 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70765 File
    70766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70767 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70768 cm.set_geometry(varray, narray, tarray) 
    70769 File
    70770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70771 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70772 arv() 
    70773 File
    70774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70775 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70776 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70777 File
    70778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70779 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70780 s.vertex_colors = self.vertex_colors(report_stats) 
    70781 File
    70782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70783 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70784 values, outside = self.volume_values() 
    70785 File
    70786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70787 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70788 return self.offset_values(v, n, tf) 
    70789 File
    70790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70791 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70792 values, outside = self.vertex_values(v, xf) 
    70793 File
    70794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70795 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70796 out_of_bounds_list = True) 
    70797 File
    70798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70799 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70800 subregion, step) 
    70801 File
    70802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70803 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70804 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70805 File
    70806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70807 packages/chimerax/map/volume.py", line 1243, in
    70808 matrix_indices_to_xyz_transform 
    70809 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70810 File
    70811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70812 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70813 r = self.subregion(step, subregion) 
    70814 File
    70815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70816 packages/chimerax/map/volume.py", line 1558, in subregion 
    70817 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70818 AttributeError: 'NoneType' object has no attribute 'size' 
    70819  
    70820 AttributeError: 'NoneType' object has no attribute 'size' 
    70821  
    70822 File
    70823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70824 packages/chimerax/map/volume.py", line 1558, in subregion 
    70825 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70826  
    70827 See log for complete Python traceback. 
    70828  
    70829 Traceback (most recent call last): 
    70830 File
    70831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70832 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70833 drew = self.draw_new_frame() 
    70834 File
    70835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70836 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70837 surface.update_clip_caps(view) 
    70838 File
    70839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70840 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70841 subdivision = settings.clipping_cap_subdivision) 
    70842 File
    70843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70844 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70845 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70846 File
    70847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70848 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70849 cm.set_geometry(varray, narray, tarray) 
    70850 File
    70851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70852 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70853 arv() 
    70854 File
    70855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70856 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70857 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70858 File
    70859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70860 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70861 s.vertex_colors = self.vertex_colors(report_stats) 
    70862 File
    70863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70864 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70865 values, outside = self.volume_values() 
    70866 File
    70867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70868 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70869 return self.offset_values(v, n, tf) 
    70870 File
    70871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70872 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70873 values, outside = self.vertex_values(v, xf) 
    70874 File
    70875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70876 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70877 out_of_bounds_list = True) 
    70878 File
    70879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70880 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70881 subregion, step) 
    70882 File
    70883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70884 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70885 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70886 File
    70887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70888 packages/chimerax/map/volume.py", line 1243, in
    70889 matrix_indices_to_xyz_transform 
    70890 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70891 File
    70892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70893 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70894 r = self.subregion(step, subregion) 
    70895 File
    70896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70897 packages/chimerax/map/volume.py", line 1558, in subregion 
    70898 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70899 AttributeError: 'NoneType' object has no attribute 'size' 
    70900  
    70901 AttributeError: 'NoneType' object has no attribute 'size' 
    70902  
    70903 File
    70904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70905 packages/chimerax/map/volume.py", line 1558, in subregion 
    70906 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70907  
    70908 See log for complete Python traceback. 
    70909  
    70910 Traceback (most recent call last): 
    70911 File
    70912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70913 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70914 drew = self.draw_new_frame() 
    70915 File
    70916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70917 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70918 surface.update_clip_caps(view) 
    70919 File
    70920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70921 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    70922 subdivision = settings.clipping_cap_subdivision) 
    70923 File
    70924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70925 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    70926 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    70927 File
    70928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70929 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    70930 cm.set_geometry(varray, narray, tarray) 
    70931 File
    70932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70933 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    70934 arv() 
    70935 File
    70936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70937 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    70938 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    70939 File
    70940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70941 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    70942 s.vertex_colors = self.vertex_colors(report_stats) 
    70943 File
    70944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70945 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    70946 values, outside = self.volume_values() 
    70947 File
    70948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70949 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    70950 return self.offset_values(v, n, tf) 
    70951 File
    70952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70953 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    70954 values, outside = self.vertex_values(v, xf) 
    70955 File
    70956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70957 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    70958 out_of_bounds_list = True) 
    70959 File
    70960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70961 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    70962 subregion, step) 
    70963 File
    70964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70965 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    70966 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    70967 File
    70968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70969 packages/chimerax/map/volume.py", line 1243, in
    70970 matrix_indices_to_xyz_transform 
    70971 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    70972 File
    70973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70974 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    70975 r = self.subregion(step, subregion) 
    70976 File
    70977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70978 packages/chimerax/map/volume.py", line 1558, in subregion 
    70979 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70980 AttributeError: 'NoneType' object has no attribute 'size' 
    70981  
    70982 AttributeError: 'NoneType' object has no attribute 'size' 
    70983  
    70984 File
    70985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70986 packages/chimerax/map/volume.py", line 1558, in subregion 
    70987 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    70988  
    70989 See log for complete Python traceback. 
    70990  
    70991 Traceback (most recent call last): 
    70992 File
    70993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70994 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    70995 drew = self.draw_new_frame() 
    70996 File
    70997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    70998 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    70999 surface.update_clip_caps(view) 
    71000 File
    71001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71002 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71003 subdivision = settings.clipping_cap_subdivision) 
    71004 File
    71005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71006 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71007 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71008 File
    71009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71010 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71011 cm.set_geometry(varray, narray, tarray) 
    71012 File
    71013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71014 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71015 arv() 
    71016 File
    71017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71018 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71019 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71020 File
    71021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71022 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71023 s.vertex_colors = self.vertex_colors(report_stats) 
    71024 File
    71025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71026 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71027 values, outside = self.volume_values() 
    71028 File
    71029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71030 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71031 return self.offset_values(v, n, tf) 
    71032 File
    71033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71034 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71035 values, outside = self.vertex_values(v, xf) 
    71036 File
    71037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71038 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71039 out_of_bounds_list = True) 
    71040 File
    71041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71042 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71043 subregion, step) 
    71044 File
    71045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71046 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71047 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71048 File
    71049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71050 packages/chimerax/map/volume.py", line 1243, in
    71051 matrix_indices_to_xyz_transform 
    71052 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71053 File
    71054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71055 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71056 r = self.subregion(step, subregion) 
    71057 File
    71058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71059 packages/chimerax/map/volume.py", line 1558, in subregion 
    71060 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71061 AttributeError: 'NoneType' object has no attribute 'size' 
    71062  
    71063 AttributeError: 'NoneType' object has no attribute 'size' 
    71064  
    71065 File
    71066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71067 packages/chimerax/map/volume.py", line 1558, in subregion 
    71068 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71069  
    71070 See log for complete Python traceback. 
    71071  
    71072 Traceback (most recent call last): 
    71073 File
    71074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71075 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71076 drew = self.draw_new_frame() 
    71077 File
    71078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71079 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71080 surface.update_clip_caps(view) 
    71081 File
    71082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71083 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71084 subdivision = settings.clipping_cap_subdivision) 
    71085 File
    71086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71087 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71088 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71089 File
    71090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71091 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71092 cm.set_geometry(varray, narray, tarray) 
    71093 File
    71094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71095 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71096 arv() 
    71097 File
    71098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71099 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71100 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71101 File
    71102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71103 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71104 s.vertex_colors = self.vertex_colors(report_stats) 
    71105 File
    71106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71107 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71108 values, outside = self.volume_values() 
    71109 File
    71110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71111 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71112 return self.offset_values(v, n, tf) 
    71113 File
    71114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71115 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71116 values, outside = self.vertex_values(v, xf) 
    71117 File
    71118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71119 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71120 out_of_bounds_list = True) 
    71121 File
    71122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71123 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71124 subregion, step) 
    71125 File
    71126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71127 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71128 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71129 File
    71130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71131 packages/chimerax/map/volume.py", line 1243, in
    71132 matrix_indices_to_xyz_transform 
    71133 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71134 File
    71135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71136 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71137 r = self.subregion(step, subregion) 
    71138 File
    71139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71140 packages/chimerax/map/volume.py", line 1558, in subregion 
    71141 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71142 AttributeError: 'NoneType' object has no attribute 'size' 
    71143  
    71144 AttributeError: 'NoneType' object has no attribute 'size' 
    71145  
    71146 File
    71147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71148 packages/chimerax/map/volume.py", line 1558, in subregion 
    71149 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71150  
    71151 See log for complete Python traceback. 
    71152  
    71153 Traceback (most recent call last): 
    71154 File
    71155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71156 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71157 drew = self.draw_new_frame() 
    71158 File
    71159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71160 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71161 surface.update_clip_caps(view) 
    71162 File
    71163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71164 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71165 subdivision = settings.clipping_cap_subdivision) 
    71166 File
    71167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71168 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71169 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71170 File
    71171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71172 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71173 cm.set_geometry(varray, narray, tarray) 
    71174 File
    71175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71176 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71177 arv() 
    71178 File
    71179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71180 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71181 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71182 File
    71183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71184 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71185 s.vertex_colors = self.vertex_colors(report_stats) 
    71186 File
    71187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71188 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71189 values, outside = self.volume_values() 
    71190 File
    71191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71192 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71193 return self.offset_values(v, n, tf) 
    71194 File
    71195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71196 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71197 values, outside = self.vertex_values(v, xf) 
    71198 File
    71199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71200 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71201 out_of_bounds_list = True) 
    71202 File
    71203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71204 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71205 subregion, step) 
    71206 File
    71207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71208 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71209 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71210 File
    71211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71212 packages/chimerax/map/volume.py", line 1243, in
    71213 matrix_indices_to_xyz_transform 
    71214 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71215 File
    71216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71217 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71218 r = self.subregion(step, subregion) 
    71219 File
    71220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71221 packages/chimerax/map/volume.py", line 1558, in subregion 
    71222 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71223 AttributeError: 'NoneType' object has no attribute 'size' 
    71224  
    71225 AttributeError: 'NoneType' object has no attribute 'size' 
    71226  
    71227 File
    71228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71229 packages/chimerax/map/volume.py", line 1558, in subregion 
    71230 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71231  
    71232 See log for complete Python traceback. 
    71233  
    71234 Traceback (most recent call last): 
    71235 File
    71236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71237 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71238 drew = self.draw_new_frame() 
    71239 File
    71240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71241 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71242 surface.update_clip_caps(view) 
    71243 File
    71244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71245 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71246 subdivision = settings.clipping_cap_subdivision) 
    71247 File
    71248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71249 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71250 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71251 File
    71252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71253 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71254 cm.set_geometry(varray, narray, tarray) 
    71255 File
    71256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71257 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71258 arv() 
    71259 File
    71260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71261 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71262 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71263 File
    71264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71265 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71266 s.vertex_colors = self.vertex_colors(report_stats) 
    71267 File
    71268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71269 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71270 values, outside = self.volume_values() 
    71271 File
    71272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71273 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71274 return self.offset_values(v, n, tf) 
    71275 File
    71276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71277 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71278 values, outside = self.vertex_values(v, xf) 
    71279 File
    71280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71281 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71282 out_of_bounds_list = True) 
    71283 File
    71284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71285 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71286 subregion, step) 
    71287 File
    71288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71289 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71290 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71291 File
    71292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71293 packages/chimerax/map/volume.py", line 1243, in
    71294 matrix_indices_to_xyz_transform 
    71295 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71296 File
    71297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71298 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71299 r = self.subregion(step, subregion) 
    71300 File
    71301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71302 packages/chimerax/map/volume.py", line 1558, in subregion 
    71303 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71304 AttributeError: 'NoneType' object has no attribute 'size' 
    71305  
    71306 AttributeError: 'NoneType' object has no attribute 'size' 
    71307  
    71308 File
    71309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71310 packages/chimerax/map/volume.py", line 1558, in subregion 
    71311 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71312  
    71313 See log for complete Python traceback. 
    71314  
    71315 Traceback (most recent call last): 
    71316 File
    71317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71318 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71319 drew = self.draw_new_frame() 
    71320 File
    71321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71322 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71323 surface.update_clip_caps(view) 
    71324 File
    71325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71326 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71327 subdivision = settings.clipping_cap_subdivision) 
    71328 File
    71329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71330 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71331 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71332 File
    71333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71334 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71335 cm.set_geometry(varray, narray, tarray) 
    71336 File
    71337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71338 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71339 arv() 
    71340 File
    71341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71342 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71343 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71344 File
    71345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71346 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71347 s.vertex_colors = self.vertex_colors(report_stats) 
    71348 File
    71349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71350 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71351 values, outside = self.volume_values() 
    71352 File
    71353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71354 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71355 return self.offset_values(v, n, tf) 
    71356 File
    71357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71358 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71359 values, outside = self.vertex_values(v, xf) 
    71360 File
    71361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71362 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71363 out_of_bounds_list = True) 
    71364 File
    71365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71366 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71367 subregion, step) 
    71368 File
    71369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71370 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71371 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71372 File
    71373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71374 packages/chimerax/map/volume.py", line 1243, in
    71375 matrix_indices_to_xyz_transform 
    71376 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71377 File
    71378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71379 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71380 r = self.subregion(step, subregion) 
    71381 File
    71382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71383 packages/chimerax/map/volume.py", line 1558, in subregion 
    71384 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71385 AttributeError: 'NoneType' object has no attribute 'size' 
    71386  
    71387 AttributeError: 'NoneType' object has no attribute 'size' 
    71388  
    71389 File
    71390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71391 packages/chimerax/map/volume.py", line 1558, in subregion 
    71392 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71393  
    71394 See log for complete Python traceback. 
    71395  
    71396 Traceback (most recent call last): 
    71397 File
    71398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71399 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71400 drew = self.draw_new_frame() 
    71401 File
    71402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71403 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71404 surface.update_clip_caps(view) 
    71405 File
    71406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71407 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71408 subdivision = settings.clipping_cap_subdivision) 
    71409 File
    71410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71411 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71412 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71413 File
    71414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71415 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71416 cm.set_geometry(varray, narray, tarray) 
    71417 File
    71418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71419 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71420 arv() 
    71421 File
    71422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71423 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71424 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71425 File
    71426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71427 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71428 s.vertex_colors = self.vertex_colors(report_stats) 
    71429 File
    71430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71431 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71432 values, outside = self.volume_values() 
    71433 File
    71434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71435 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71436 return self.offset_values(v, n, tf) 
    71437 File
    71438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71439 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71440 values, outside = self.vertex_values(v, xf) 
    71441 File
    71442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71443 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71444 out_of_bounds_list = True) 
    71445 File
    71446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71447 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71448 subregion, step) 
    71449 File
    71450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71451 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71452 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71453 File
    71454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71455 packages/chimerax/map/volume.py", line 1243, in
    71456 matrix_indices_to_xyz_transform 
    71457 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71458 File
    71459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71460 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71461 r = self.subregion(step, subregion) 
    71462 File
    71463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71464 packages/chimerax/map/volume.py", line 1558, in subregion 
    71465 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71466 AttributeError: 'NoneType' object has no attribute 'size' 
    71467  
    71468 AttributeError: 'NoneType' object has no attribute 'size' 
    71469  
    71470 File
    71471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71472 packages/chimerax/map/volume.py", line 1558, in subregion 
    71473 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71474  
    71475 See log for complete Python traceback. 
    71476  
    71477 Traceback (most recent call last): 
    71478 File
    71479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71480 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71481 drew = self.draw_new_frame() 
    71482 File
    71483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71484 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71485 surface.update_clip_caps(view) 
    71486 File
    71487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71488 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71489 subdivision = settings.clipping_cap_subdivision) 
    71490 File
    71491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71492 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71493 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71494 File
    71495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71496 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71497 cm.set_geometry(varray, narray, tarray) 
    71498 File
    71499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71500 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71501 arv() 
    71502 File
    71503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71504 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71505 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71506 File
    71507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71508 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71509 s.vertex_colors = self.vertex_colors(report_stats) 
    71510 File
    71511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71512 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71513 values, outside = self.volume_values() 
    71514 File
    71515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71516 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71517 return self.offset_values(v, n, tf) 
    71518 File
    71519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71520 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71521 values, outside = self.vertex_values(v, xf) 
    71522 File
    71523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71524 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71525 out_of_bounds_list = True) 
    71526 File
    71527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71528 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71529 subregion, step) 
    71530 File
    71531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71532 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71533 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71534 File
    71535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71536 packages/chimerax/map/volume.py", line 1243, in
    71537 matrix_indices_to_xyz_transform 
    71538 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71539 File
    71540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71541 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71542 r = self.subregion(step, subregion) 
    71543 File
    71544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71545 packages/chimerax/map/volume.py", line 1558, in subregion 
    71546 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71547 AttributeError: 'NoneType' object has no attribute 'size' 
    71548  
    71549 AttributeError: 'NoneType' object has no attribute 'size' 
    71550  
    71551 File
    71552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71553 packages/chimerax/map/volume.py", line 1558, in subregion 
    71554 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71555  
    71556 See log for complete Python traceback. 
    71557  
    71558 Traceback (most recent call last): 
    71559 File
    71560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71561 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71562 drew = self.draw_new_frame() 
    71563 File
    71564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71565 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71566 surface.update_clip_caps(view) 
    71567 File
    71568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71569 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71570 subdivision = settings.clipping_cap_subdivision) 
    71571 File
    71572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71573 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71574 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71575 File
    71576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71577 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71578 cm.set_geometry(varray, narray, tarray) 
    71579 File
    71580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71581 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71582 arv() 
    71583 File
    71584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71585 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71586 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71587 File
    71588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71589 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71590 s.vertex_colors = self.vertex_colors(report_stats) 
    71591 File
    71592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71593 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71594 values, outside = self.volume_values() 
    71595 File
    71596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71597 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71598 return self.offset_values(v, n, tf) 
    71599 File
    71600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71601 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71602 values, outside = self.vertex_values(v, xf) 
    71603 File
    71604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71605 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71606 out_of_bounds_list = True) 
    71607 File
    71608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71609 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71610 subregion, step) 
    71611 File
    71612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71613 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71614 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71615 File
    71616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71617 packages/chimerax/map/volume.py", line 1243, in
    71618 matrix_indices_to_xyz_transform 
    71619 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71620 File
    71621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71622 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71623 r = self.subregion(step, subregion) 
    71624 File
    71625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71626 packages/chimerax/map/volume.py", line 1558, in subregion 
    71627 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71628 AttributeError: 'NoneType' object has no attribute 'size' 
    71629  
    71630 AttributeError: 'NoneType' object has no attribute 'size' 
    71631  
    71632 File
    71633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71634 packages/chimerax/map/volume.py", line 1558, in subregion 
    71635 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71636  
    71637 See log for complete Python traceback. 
    71638  
    71639 Traceback (most recent call last): 
    71640 File
    71641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71642 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71643 drew = self.draw_new_frame() 
    71644 File
    71645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71646 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71647 surface.update_clip_caps(view) 
    71648 File
    71649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71650 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71651 subdivision = settings.clipping_cap_subdivision) 
    71652 File
    71653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71654 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71655 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71656 File
    71657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71658 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71659 cm.set_geometry(varray, narray, tarray) 
    71660 File
    71661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71662 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71663 arv() 
    71664 File
    71665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71666 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71667 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71668 File
    71669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71670 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71671 s.vertex_colors = self.vertex_colors(report_stats) 
    71672 File
    71673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71674 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71675 values, outside = self.volume_values() 
    71676 File
    71677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71678 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71679 return self.offset_values(v, n, tf) 
    71680 File
    71681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71682 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71683 values, outside = self.vertex_values(v, xf) 
    71684 File
    71685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71686 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71687 out_of_bounds_list = True) 
    71688 File
    71689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71690 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71691 subregion, step) 
    71692 File
    71693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71694 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71695 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71696 File
    71697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71698 packages/chimerax/map/volume.py", line 1243, in
    71699 matrix_indices_to_xyz_transform 
    71700 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71701 File
    71702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71703 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71704 r = self.subregion(step, subregion) 
    71705 File
    71706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71707 packages/chimerax/map/volume.py", line 1558, in subregion 
    71708 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71709 AttributeError: 'NoneType' object has no attribute 'size' 
    71710  
    71711 AttributeError: 'NoneType' object has no attribute 'size' 
    71712  
    71713 File
    71714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71715 packages/chimerax/map/volume.py", line 1558, in subregion 
    71716 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71717  
    71718 See log for complete Python traceback. 
    71719  
    71720 Traceback (most recent call last): 
    71721 File
    71722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71723 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71724 drew = self.draw_new_frame() 
    71725 File
    71726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71727 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71728 surface.update_clip_caps(view) 
    71729 File
    71730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71731 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71732 subdivision = settings.clipping_cap_subdivision) 
    71733 File
    71734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71735 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71736 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71737 File
    71738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71739 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71740 cm.set_geometry(varray, narray, tarray) 
    71741 File
    71742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71743 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71744 arv() 
    71745 File
    71746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71747 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71748 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71749 File
    71750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71751 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71752 s.vertex_colors = self.vertex_colors(report_stats) 
    71753 File
    71754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71755 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71756 values, outside = self.volume_values() 
    71757 File
    71758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71759 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71760 return self.offset_values(v, n, tf) 
    71761 File
    71762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71763 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71764 values, outside = self.vertex_values(v, xf) 
    71765 File
    71766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71767 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71768 out_of_bounds_list = True) 
    71769 File
    71770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71771 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71772 subregion, step) 
    71773 File
    71774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71775 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71776 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71777 File
    71778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71779 packages/chimerax/map/volume.py", line 1243, in
    71780 matrix_indices_to_xyz_transform 
    71781 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71782 File
    71783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71784 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71785 r = self.subregion(step, subregion) 
    71786 File
    71787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71788 packages/chimerax/map/volume.py", line 1558, in subregion 
    71789 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71790 AttributeError: 'NoneType' object has no attribute 'size' 
    71791  
    71792 AttributeError: 'NoneType' object has no attribute 'size' 
    71793  
    71794 File
    71795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71796 packages/chimerax/map/volume.py", line 1558, in subregion 
    71797 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71798  
    71799 See log for complete Python traceback. 
    71800  
    71801 Traceback (most recent call last): 
    71802 File
    71803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71804 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71805 drew = self.draw_new_frame() 
    71806 File
    71807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71808 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71809 surface.update_clip_caps(view) 
    71810 File
    71811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71812 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71813 subdivision = settings.clipping_cap_subdivision) 
    71814 File
    71815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71816 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71817 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71818 File
    71819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71820 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71821 cm.set_geometry(varray, narray, tarray) 
    71822 File
    71823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71824 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71825 arv() 
    71826 File
    71827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71828 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71829 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71830 File
    71831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71832 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71833 s.vertex_colors = self.vertex_colors(report_stats) 
    71834 File
    71835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71836 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71837 values, outside = self.volume_values() 
    71838 File
    71839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71840 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71841 return self.offset_values(v, n, tf) 
    71842 File
    71843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71844 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71845 values, outside = self.vertex_values(v, xf) 
    71846 File
    71847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71848 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71849 out_of_bounds_list = True) 
    71850 File
    71851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71852 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71853 subregion, step) 
    71854 File
    71855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71856 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71857 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71858 File
    71859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71860 packages/chimerax/map/volume.py", line 1243, in
    71861 matrix_indices_to_xyz_transform 
    71862 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71863 File
    71864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71865 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71866 r = self.subregion(step, subregion) 
    71867 File
    71868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71869 packages/chimerax/map/volume.py", line 1558, in subregion 
    71870 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71871 AttributeError: 'NoneType' object has no attribute 'size' 
    71872  
    71873 AttributeError: 'NoneType' object has no attribute 'size' 
    71874  
    71875 File
    71876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71877 packages/chimerax/map/volume.py", line 1558, in subregion 
    71878 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71879  
    71880 See log for complete Python traceback. 
    71881  
    71882 Traceback (most recent call last): 
    71883 File
    71884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71885 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    71886 drew = self.draw_new_frame() 
    71887 File
    71888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71889 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    71890 surface.update_clip_caps(view) 
    71891 File
    71892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71893 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    71894 subdivision = settings.clipping_cap_subdivision) 
    71895 File
    71896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71897 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    71898 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    71899 File
    71900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71901 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    71902 cm.set_geometry(varray, narray, tarray) 
    71903 File
    71904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71905 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    71906 arv() 
    71907 File
    71908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71909 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    71910 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    71911 File
    71912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71913 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    71914 s.vertex_colors = self.vertex_colors(report_stats) 
    71915 File
    71916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71917 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    71918 values, outside = self.volume_values() 
    71919 File
    71920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71921 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    71922 return self.offset_values(v, n, tf) 
    71923 File
    71924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71925 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    71926 values, outside = self.vertex_values(v, xf) 
    71927 File
    71928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71929 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    71930 out_of_bounds_list = True) 
    71931 File
    71932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71933 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    71934 subregion, step) 
    71935 File
    71936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71937 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    71938 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    71939 File
    71940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71941 packages/chimerax/map/volume.py", line 1243, in
    71942 matrix_indices_to_xyz_transform 
    71943 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    71944 File
    71945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71946 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    71947 r = self.subregion(step, subregion) 
    71948 File
    71949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71950 packages/chimerax/map/volume.py", line 1558, in subregion 
    71951 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71952 AttributeError: 'NoneType' object has no attribute 'size' 
    71953  
    71954 AttributeError: 'NoneType' object has no attribute 'size' 
    71955  
    71956 File
    71957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    71958 packages/chimerax/map/volume.py", line 1558, in subregion 
    71959 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    71960  
    71961 See log for complete Python traceback. 
    71962  
    71963 
    71964 > volume #12 level 0.4413
    71965 
    71966 > volume gaussian #12 bfactor -50
    71967 
    71968 > volume #5 level 0.509
    71969 
    71970 > volume #5 level 0.6889
    71971 
    71972 > volume #5 level 0.599
    71973 
    71974 > volume #15 level 0.6884
    71975 
    71976 > volume #5 level 0.7227
    71977 
    71978 > volume #5 level 0.6664
    71979 
    71980 > volume #5 level 0.6777
    71981 
    71982 > volume #5 level 0.4303
    71983 
    71984 > volume #15 level 0.5422
    71985 
    71986 > volume #15 level 0.6884
    71987 
    71988 > volume #5 level 0.5765
    71989 
    71990 > volume #15 level 0.6518
    71991 
    71992 > volume #15 level 0.7127
    71993 
    71994 > volume #5 level 0.599
    71995 
    71996 > volume #5 level 0.6327
    71997 
    71998 > volume #15 level 0.6884
    71999 
    72000 > volume gaussian #10 bfactor -100
    72001 
    72002 > volume #9 level 0.8783
    72003 
    72004 > volume #9 level 1.013
    72005 
    72006 > volume #9 level 1.374
    72007 
    72008 > volume #9 level 0.8558
    72009 
    72010 > show #!4 models
    72011 
    72012 > hide #!4 models
    72013 
    72014 > show #!1 models
    72015 
    72016 > hide #!1 models
    72017 
    72018 > show #!2 models
    72019 
    72020 > hide #!2 models
    72021 
    72022 > show #!3 models
    72023 
    72024 > hide #!3 models
    72025 
    72026 > show #7 models
    72027 
    72028 > hide #7 models
    72029 
    72030 > show #7 models
    72031 
    72032 > hide #7 models
    72033 
    72034 > show #!10 models
    72035 
    72036 > hide #!10 models
    72037 
    72038 > hide #!9 models
    72039 
    72040 > show #!9 models
    72041 
    72042 > volume #9 level 1.599
    72043 
    72044 > volume #9 level 1.104
    72045 
    72046 > volume #9 level 0.9234
    72047 
    72048 > volume #9 level 0.8333
    72049 
    72050 > volume #9 level 0.9684
    72051 
    72052 > volume #5 level 0.5765
    72053 
    72054 > volume #9 level 0.9684
    72055 
    72056 > volume #15 level 0.6884
    72057 
    72058 > volume #15 level 0.7006
    72059 
    72060 > volume #9 level 0.9909
    72061 
    72062 > volume #9 level 1.013
    72063 
    72064 > volume #9 level 1.036
    72065 
    72066 > volume #9 level 1.059
    72067 
    72068 > volume #15 level 0.7127
    72069 
    72070 > volume #9 level 0.9459
    72071 
    72072 > volume #15 level 0.4813
    72073 
    72074 > volume #15 level 0.4326
    72075 
    72076 > volume #15 level 0.6884
    72077 
    72078 > volume #9 level 0.8783
    72079 
    72080 > volume #9 level 0.9234
    72081 
    72082 > volume #9 level 0.9008
    72083 
    72084 > show #!4 models
    72085 
    72086 > hide #!4 models
    72087 
    72088 > show #!4 models
    72089 
    72090 > volume gaussian #4 bfactor -100
    72091 
    72092 > volume #13 level 2.882
    72093 
    72094 > volume gaussian #4 bfactor -50
    72095 
    72096 > volume #14 level 0.07733
    72097 
    72098 > show #!4 models
    72099 
    72100 > volume #15 level 0.6884
    72101 
    72102 > hide #!4 models
    72103 
    72104 > show #!4 models
    72105 
    72106 > hide #!4 models
    72107 
    72108 > show #!4 models
    72109 
    72110 > hide #!4 models
    72111 
    72112 > show #11 models
    72113 
    72114 > hide #11 models
    72115 
    72116 > open2 /Users/shirinmortazavi/Documents/cryo-
    72117 > EM/SM0121_TRAM34_2/cryosparc_P22_J2155_map_sharp.mrc
    72118 
    72119 Opened cryosparc_P22_J2155_map_sharp.mrc, grid size 256,256,256, pixel 1.23,
    72120 shown at level 0.224, step 1, values float32 
    72121 
    72122 > volume #13 level 0.4386
    72123 
    72124 > volume #13 level 0.616
    72125 
    72126 Traceback (most recent call last): 
    72127 File
    72128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72129 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72130 drew = self.draw_new_frame() 
    72131 File
    72132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72133 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72134 surface.update_clip_caps(view) 
    72135 File
    72136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72137 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72138 subdivision = settings.clipping_cap_subdivision) 
    72139 File
    72140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72141 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72142 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72143 File
    72144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72145 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72146 cm.set_geometry(varray, narray, tarray) 
    72147 File
    72148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72149 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72150 arv() 
    72151 File
    72152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72153 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72154 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72155 File
    72156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72157 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72158 s.vertex_colors = self.vertex_colors(report_stats) 
    72159 File
    72160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72161 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72162 values, outside = self.volume_values() 
    72163 File
    72164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72165 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72166 return self.offset_values(v, n, tf) 
    72167 File
    72168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72169 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72170 values, outside = self.vertex_values(v, xf) 
    72171 File
    72172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72173 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72174 out_of_bounds_list = True) 
    72175 File
    72176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72177 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72178 subregion, step) 
    72179 File
    72180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72181 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72182 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72183 File
    72184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72185 packages/chimerax/map/volume.py", line 1243, in
    72186 matrix_indices_to_xyz_transform 
    72187 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72188 File
    72189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72190 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72191 r = self.subregion(step, subregion) 
    72192 File
    72193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72194 packages/chimerax/map/volume.py", line 1558, in subregion 
    72195 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72196 AttributeError: 'NoneType' object has no attribute 'size' 
    72197  
    72198 AttributeError: 'NoneType' object has no attribute 'size' 
    72199  
    72200 File
    72201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72202 packages/chimerax/map/volume.py", line 1558, in subregion 
    72203 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72204  
    72205 See log for complete Python traceback. 
    72206  
    72207 Traceback (most recent call last): 
    72208 File
    72209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72210 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72211 drew = self.draw_new_frame() 
    72212 File
    72213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72214 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72215 surface.update_clip_caps(view) 
    72216 File
    72217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72218 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72219 subdivision = settings.clipping_cap_subdivision) 
    72220 File
    72221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72222 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72223 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72224 File
    72225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72226 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72227 cm.set_geometry(varray, narray, tarray) 
    72228 File
    72229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72230 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72231 arv() 
    72232 File
    72233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72234 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72235 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72236 File
    72237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72238 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72239 s.vertex_colors = self.vertex_colors(report_stats) 
    72240 File
    72241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72242 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72243 values, outside = self.volume_values() 
    72244 File
    72245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72246 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72247 return self.offset_values(v, n, tf) 
    72248 File
    72249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72250 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72251 values, outside = self.vertex_values(v, xf) 
    72252 File
    72253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72254 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72255 out_of_bounds_list = True) 
    72256 File
    72257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72258 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72259 subregion, step) 
    72260 File
    72261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72262 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72263 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72264 File
    72265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72266 packages/chimerax/map/volume.py", line 1243, in
    72267 matrix_indices_to_xyz_transform 
    72268 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72269 File
    72270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72271 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72272 r = self.subregion(step, subregion) 
    72273 File
    72274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72275 packages/chimerax/map/volume.py", line 1558, in subregion 
    72276 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72277 AttributeError: 'NoneType' object has no attribute 'size' 
    72278  
    72279 AttributeError: 'NoneType' object has no attribute 'size' 
    72280  
    72281 File
    72282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72283 packages/chimerax/map/volume.py", line 1558, in subregion 
    72284 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72285  
    72286 See log for complete Python traceback. 
    72287  
    72288 Traceback (most recent call last): 
    72289 File
    72290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72291 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72292 drew = self.draw_new_frame() 
    72293 File
    72294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72295 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72296 surface.update_clip_caps(view) 
    72297 File
    72298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72299 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72300 subdivision = settings.clipping_cap_subdivision) 
    72301 File
    72302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72303 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72304 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72305 File
    72306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72307 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72308 cm.set_geometry(varray, narray, tarray) 
    72309 File
    72310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72311 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72312 arv() 
    72313 File
    72314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72315 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72316 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72317 File
    72318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72319 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72320 s.vertex_colors = self.vertex_colors(report_stats) 
    72321 File
    72322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72323 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72324 values, outside = self.volume_values() 
    72325 File
    72326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72327 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72328 return self.offset_values(v, n, tf) 
    72329 File
    72330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72331 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72332 values, outside = self.vertex_values(v, xf) 
    72333 File
    72334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72335 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72336 out_of_bounds_list = True) 
    72337 File
    72338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72339 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72340 subregion, step) 
    72341 File
    72342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72343 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72344 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72345 File
    72346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72347 packages/chimerax/map/volume.py", line 1243, in
    72348 matrix_indices_to_xyz_transform 
    72349 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72350 File
    72351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72352 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72353 r = self.subregion(step, subregion) 
    72354 File
    72355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72356 packages/chimerax/map/volume.py", line 1558, in subregion 
    72357 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72358 AttributeError: 'NoneType' object has no attribute 'size' 
    72359  
    72360 AttributeError: 'NoneType' object has no attribute 'size' 
    72361  
    72362 File
    72363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72364 packages/chimerax/map/volume.py", line 1558, in subregion 
    72365 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72366  
    72367 See log for complete Python traceback. 
    72368  
    72369 Traceback (most recent call last): 
    72370 File
    72371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72372 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72373 drew = self.draw_new_frame() 
    72374 File
    72375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72376 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72377 surface.update_clip_caps(view) 
    72378 File
    72379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72380 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72381 subdivision = settings.clipping_cap_subdivision) 
    72382 File
    72383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72384 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72385 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72386 File
    72387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72388 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72389 cm.set_geometry(varray, narray, tarray) 
    72390 File
    72391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72392 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72393 arv() 
    72394 File
    72395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72396 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72397 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72398 File
    72399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72400 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72401 s.vertex_colors = self.vertex_colors(report_stats) 
    72402 File
    72403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72404 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72405 values, outside = self.volume_values() 
    72406 File
    72407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72408 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72409 return self.offset_values(v, n, tf) 
    72410 File
    72411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72412 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72413 values, outside = self.vertex_values(v, xf) 
    72414 File
    72415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72416 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72417 out_of_bounds_list = True) 
    72418 File
    72419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72420 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72421 subregion, step) 
    72422 File
    72423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72424 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72425 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72426 File
    72427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72428 packages/chimerax/map/volume.py", line 1243, in
    72429 matrix_indices_to_xyz_transform 
    72430 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72431 File
    72432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72433 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72434 r = self.subregion(step, subregion) 
    72435 File
    72436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72437 packages/chimerax/map/volume.py", line 1558, in subregion 
    72438 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72439 AttributeError: 'NoneType' object has no attribute 'size' 
    72440  
    72441 AttributeError: 'NoneType' object has no attribute 'size' 
    72442  
    72443 File
    72444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72445 packages/chimerax/map/volume.py", line 1558, in subregion 
    72446 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72447  
    72448 See log for complete Python traceback. 
    72449  
    72450 Traceback (most recent call last): 
    72451 File
    72452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72453 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72454 drew = self.draw_new_frame() 
    72455 File
    72456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72457 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72458 surface.update_clip_caps(view) 
    72459 File
    72460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72461 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72462 subdivision = settings.clipping_cap_subdivision) 
    72463 File
    72464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72465 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72466 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72467 File
    72468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72469 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72470 cm.set_geometry(varray, narray, tarray) 
    72471 File
    72472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72473 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72474 arv() 
    72475 File
    72476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72477 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72478 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72479 File
    72480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72481 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72482 s.vertex_colors = self.vertex_colors(report_stats) 
    72483 File
    72484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72485 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72486 values, outside = self.volume_values() 
    72487 File
    72488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72489 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72490 return self.offset_values(v, n, tf) 
    72491 File
    72492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72493 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72494 values, outside = self.vertex_values(v, xf) 
    72495 File
    72496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72497 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72498 out_of_bounds_list = True) 
    72499 File
    72500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72501 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72502 subregion, step) 
    72503 File
    72504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72505 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72506 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72507 File
    72508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72509 packages/chimerax/map/volume.py", line 1243, in
    72510 matrix_indices_to_xyz_transform 
    72511 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72512 File
    72513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72514 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72515 r = self.subregion(step, subregion) 
    72516 File
    72517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72518 packages/chimerax/map/volume.py", line 1558, in subregion 
    72519 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72520 AttributeError: 'NoneType' object has no attribute 'size' 
    72521  
    72522 AttributeError: 'NoneType' object has no attribute 'size' 
    72523  
    72524 File
    72525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72526 packages/chimerax/map/volume.py", line 1558, in subregion 
    72527 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72528  
    72529 See log for complete Python traceback. 
    72530  
    72531 Traceback (most recent call last): 
    72532 File
    72533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72534 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72535 drew = self.draw_new_frame() 
    72536 File
    72537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72538 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72539 surface.update_clip_caps(view) 
    72540 File
    72541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72542 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72543 subdivision = settings.clipping_cap_subdivision) 
    72544 File
    72545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72546 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72547 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72548 File
    72549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72550 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72551 cm.set_geometry(varray, narray, tarray) 
    72552 File
    72553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72554 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72555 arv() 
    72556 File
    72557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72558 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72559 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72560 File
    72561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72562 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72563 s.vertex_colors = self.vertex_colors(report_stats) 
    72564 File
    72565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72566 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72567 values, outside = self.volume_values() 
    72568 File
    72569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72570 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72571 return self.offset_values(v, n, tf) 
    72572 File
    72573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72574 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72575 values, outside = self.vertex_values(v, xf) 
    72576 File
    72577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72578 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72579 out_of_bounds_list = True) 
    72580 File
    72581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72582 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72583 subregion, step) 
    72584 File
    72585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72586 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72587 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72588 File
    72589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72590 packages/chimerax/map/volume.py", line 1243, in
    72591 matrix_indices_to_xyz_transform 
    72592 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72593 File
    72594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72595 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72596 r = self.subregion(step, subregion) 
    72597 File
    72598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72599 packages/chimerax/map/volume.py", line 1558, in subregion 
    72600 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72601 AttributeError: 'NoneType' object has no attribute 'size' 
    72602  
    72603 AttributeError: 'NoneType' object has no attribute 'size' 
    72604  
    72605 File
    72606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72607 packages/chimerax/map/volume.py", line 1558, in subregion 
    72608 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72609  
    72610 See log for complete Python traceback. 
    72611  
    72612 Traceback (most recent call last): 
    72613 File
    72614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72615 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72616 drew = self.draw_new_frame() 
    72617 File
    72618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72619 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72620 surface.update_clip_caps(view) 
    72621 File
    72622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72623 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72624 subdivision = settings.clipping_cap_subdivision) 
    72625 File
    72626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72627 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72628 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72629 File
    72630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72631 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72632 cm.set_geometry(varray, narray, tarray) 
    72633 File
    72634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72635 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72636 arv() 
    72637 File
    72638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72639 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72640 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72641 File
    72642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72643 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72644 s.vertex_colors = self.vertex_colors(report_stats) 
    72645 File
    72646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72647 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72648 values, outside = self.volume_values() 
    72649 File
    72650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72651 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72652 return self.offset_values(v, n, tf) 
    72653 File
    72654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72655 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72656 values, outside = self.vertex_values(v, xf) 
    72657 File
    72658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72659 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72660 out_of_bounds_list = True) 
    72661 File
    72662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72663 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72664 subregion, step) 
    72665 File
    72666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72667 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72668 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72669 File
    72670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72671 packages/chimerax/map/volume.py", line 1243, in
    72672 matrix_indices_to_xyz_transform 
    72673 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72674 File
    72675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72676 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72677 r = self.subregion(step, subregion) 
    72678 File
    72679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72680 packages/chimerax/map/volume.py", line 1558, in subregion 
    72681 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72682 AttributeError: 'NoneType' object has no attribute 'size' 
    72683  
    72684 AttributeError: 'NoneType' object has no attribute 'size' 
    72685  
    72686 File
    72687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72688 packages/chimerax/map/volume.py", line 1558, in subregion 
    72689 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72690  
    72691 See log for complete Python traceback. 
    72692  
    72693 Traceback (most recent call last): 
    72694 File
    72695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72696 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72697 drew = self.draw_new_frame() 
    72698 File
    72699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72700 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72701 surface.update_clip_caps(view) 
    72702 File
    72703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72704 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72705 subdivision = settings.clipping_cap_subdivision) 
    72706 File
    72707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72708 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72709 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72710 File
    72711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72712 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72713 cm.set_geometry(varray, narray, tarray) 
    72714 File
    72715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72716 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72717 arv() 
    72718 File
    72719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72720 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72721 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72722 File
    72723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72724 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72725 s.vertex_colors = self.vertex_colors(report_stats) 
    72726 File
    72727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72728 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72729 values, outside = self.volume_values() 
    72730 File
    72731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72732 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72733 return self.offset_values(v, n, tf) 
    72734 File
    72735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72736 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72737 values, outside = self.vertex_values(v, xf) 
    72738 File
    72739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72740 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72741 out_of_bounds_list = True) 
    72742 File
    72743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72744 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72745 subregion, step) 
    72746 File
    72747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72748 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72749 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72750 File
    72751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72752 packages/chimerax/map/volume.py", line 1243, in
    72753 matrix_indices_to_xyz_transform 
    72754 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72755 File
    72756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72757 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72758 r = self.subregion(step, subregion) 
    72759 File
    72760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72761 packages/chimerax/map/volume.py", line 1558, in subregion 
    72762 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72763 AttributeError: 'NoneType' object has no attribute 'size' 
    72764  
    72765 AttributeError: 'NoneType' object has no attribute 'size' 
    72766  
    72767 File
    72768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72769 packages/chimerax/map/volume.py", line 1558, in subregion 
    72770 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72771  
    72772 See log for complete Python traceback. 
    72773  
    72774 Traceback (most recent call last): 
    72775 File
    72776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72777 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72778 drew = self.draw_new_frame() 
    72779 File
    72780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72781 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72782 surface.update_clip_caps(view) 
    72783 File
    72784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72785 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72786 subdivision = settings.clipping_cap_subdivision) 
    72787 File
    72788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72789 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72790 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72791 File
    72792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72793 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72794 cm.set_geometry(varray, narray, tarray) 
    72795 File
    72796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72797 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72798 arv() 
    72799 File
    72800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72801 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72802 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72803 File
    72804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72805 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72806 s.vertex_colors = self.vertex_colors(report_stats) 
    72807 File
    72808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72809 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72810 values, outside = self.volume_values() 
    72811 File
    72812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72813 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72814 return self.offset_values(v, n, tf) 
    72815 File
    72816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72817 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72818 values, outside = self.vertex_values(v, xf) 
    72819 File
    72820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72821 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72822 out_of_bounds_list = True) 
    72823 File
    72824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72825 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72826 subregion, step) 
    72827 File
    72828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72829 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72830 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72831 File
    72832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72833 packages/chimerax/map/volume.py", line 1243, in
    72834 matrix_indices_to_xyz_transform 
    72835 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72836 File
    72837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72838 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72839 r = self.subregion(step, subregion) 
    72840 File
    72841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72842 packages/chimerax/map/volume.py", line 1558, in subregion 
    72843 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72844 AttributeError: 'NoneType' object has no attribute 'size' 
    72845  
    72846 AttributeError: 'NoneType' object has no attribute 'size' 
    72847  
    72848 File
    72849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72850 packages/chimerax/map/volume.py", line 1558, in subregion 
    72851 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72852  
    72853 See log for complete Python traceback. 
    72854  
    72855 Traceback (most recent call last): 
    72856 File
    72857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72858 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72859 drew = self.draw_new_frame() 
    72860 File
    72861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72862 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72863 surface.update_clip_caps(view) 
    72864 File
    72865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72866 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72867 subdivision = settings.clipping_cap_subdivision) 
    72868 File
    72869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72870 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72871 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72872 File
    72873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72874 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72875 cm.set_geometry(varray, narray, tarray) 
    72876 File
    72877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72878 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72879 arv() 
    72880 File
    72881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72882 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72883 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72884 File
    72885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72886 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72887 s.vertex_colors = self.vertex_colors(report_stats) 
    72888 File
    72889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72890 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72891 values, outside = self.volume_values() 
    72892 File
    72893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72894 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72895 return self.offset_values(v, n, tf) 
    72896 File
    72897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72898 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72899 values, outside = self.vertex_values(v, xf) 
    72900 File
    72901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72902 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72903 out_of_bounds_list = True) 
    72904 File
    72905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72906 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72907 subregion, step) 
    72908 File
    72909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72910 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72911 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72912 File
    72913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72914 packages/chimerax/map/volume.py", line 1243, in
    72915 matrix_indices_to_xyz_transform 
    72916 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72917 File
    72918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72919 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    72920 r = self.subregion(step, subregion) 
    72921 File
    72922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72923 packages/chimerax/map/volume.py", line 1558, in subregion 
    72924 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72925 AttributeError: 'NoneType' object has no attribute 'size' 
    72926  
    72927 AttributeError: 'NoneType' object has no attribute 'size' 
    72928  
    72929 File
    72930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72931 packages/chimerax/map/volume.py", line 1558, in subregion 
    72932 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    72933  
    72934 See log for complete Python traceback. 
    72935  
    72936 Traceback (most recent call last): 
    72937 File
    72938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72939 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    72940 drew = self.draw_new_frame() 
    72941 File
    72942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72943 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    72944 surface.update_clip_caps(view) 
    72945 File
    72946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72947 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    72948 subdivision = settings.clipping_cap_subdivision) 
    72949 File
    72950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72951 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    72952 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    72953 File
    72954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72955 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    72956 cm.set_geometry(varray, narray, tarray) 
    72957 File
    72958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72959 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    72960 arv() 
    72961 File
    72962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72963 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    72964 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    72965 File
    72966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72967 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    72968 s.vertex_colors = self.vertex_colors(report_stats) 
    72969 File
    72970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72971 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    72972 values, outside = self.volume_values() 
    72973 File
    72974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72975 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    72976 return self.offset_values(v, n, tf) 
    72977 File
    72978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72979 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    72980 values, outside = self.vertex_values(v, xf) 
    72981 File
    72982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72983 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    72984 out_of_bounds_list = True) 
    72985 File
    72986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72987 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    72988 subregion, step) 
    72989 File
    72990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72991 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    72992 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    72993 File
    72994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    72995 packages/chimerax/map/volume.py", line 1243, in
    72996 matrix_indices_to_xyz_transform 
    72997 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    72998 File
    72999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73000 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73001 r = self.subregion(step, subregion) 
    73002 File
    73003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73004 packages/chimerax/map/volume.py", line 1558, in subregion 
    73005 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73006 AttributeError: 'NoneType' object has no attribute 'size' 
    73007  
    73008 AttributeError: 'NoneType' object has no attribute 'size' 
    73009  
    73010 File
    73011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73012 packages/chimerax/map/volume.py", line 1558, in subregion 
    73013 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73014  
    73015 See log for complete Python traceback. 
    73016  
    73017 Traceback (most recent call last): 
    73018 File
    73019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73020 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73021 drew = self.draw_new_frame() 
    73022 File
    73023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73024 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73025 surface.update_clip_caps(view) 
    73026 File
    73027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73028 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73029 subdivision = settings.clipping_cap_subdivision) 
    73030 File
    73031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73032 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73033 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73034 File
    73035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73036 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73037 cm.set_geometry(varray, narray, tarray) 
    73038 File
    73039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73040 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73041 arv() 
    73042 File
    73043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73044 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73045 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73046 File
    73047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73048 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73049 s.vertex_colors = self.vertex_colors(report_stats) 
    73050 File
    73051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73052 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73053 values, outside = self.volume_values() 
    73054 File
    73055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73056 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73057 return self.offset_values(v, n, tf) 
    73058 File
    73059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73060 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73061 values, outside = self.vertex_values(v, xf) 
    73062 File
    73063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73064 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73065 out_of_bounds_list = True) 
    73066 File
    73067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73068 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73069 subregion, step) 
    73070 File
    73071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73072 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73073 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73074 File
    73075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73076 packages/chimerax/map/volume.py", line 1243, in
    73077 matrix_indices_to_xyz_transform 
    73078 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73079 File
    73080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73081 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73082 r = self.subregion(step, subregion) 
    73083 File
    73084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73085 packages/chimerax/map/volume.py", line 1558, in subregion 
    73086 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73087 AttributeError: 'NoneType' object has no attribute 'size' 
    73088  
    73089 AttributeError: 'NoneType' object has no attribute 'size' 
    73090  
    73091 File
    73092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73093 packages/chimerax/map/volume.py", line 1558, in subregion 
    73094 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73095  
    73096 See log for complete Python traceback. 
    73097  
    73098 Traceback (most recent call last): 
    73099 File
    73100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73101 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73102 drew = self.draw_new_frame() 
    73103 File
    73104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73105 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73106 surface.update_clip_caps(view) 
    73107 File
    73108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73109 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73110 subdivision = settings.clipping_cap_subdivision) 
    73111 File
    73112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73113 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73114 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73115 File
    73116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73117 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73118 cm.set_geometry(varray, narray, tarray) 
    73119 File
    73120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73121 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73122 arv() 
    73123 File
    73124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73125 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73126 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73127 File
    73128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73129 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73130 s.vertex_colors = self.vertex_colors(report_stats) 
    73131 File
    73132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73133 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73134 values, outside = self.volume_values() 
    73135 File
    73136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73137 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73138 return self.offset_values(v, n, tf) 
    73139 File
    73140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73141 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73142 values, outside = self.vertex_values(v, xf) 
    73143 File
    73144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73145 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73146 out_of_bounds_list = True) 
    73147 File
    73148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73149 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73150 subregion, step) 
    73151 File
    73152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73153 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73154 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73155 File
    73156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73157 packages/chimerax/map/volume.py", line 1243, in
    73158 matrix_indices_to_xyz_transform 
    73159 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73160 File
    73161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73162 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73163 r = self.subregion(step, subregion) 
    73164 File
    73165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73166 packages/chimerax/map/volume.py", line 1558, in subregion 
    73167 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73168 AttributeError: 'NoneType' object has no attribute 'size' 
    73169  
    73170 AttributeError: 'NoneType' object has no attribute 'size' 
    73171  
    73172 File
    73173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73174 packages/chimerax/map/volume.py", line 1558, in subregion 
    73175 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73176  
    73177 See log for complete Python traceback. 
    73178  
    73179 Traceback (most recent call last): 
    73180 File
    73181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73182 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73183 drew = self.draw_new_frame() 
    73184 File
    73185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73186 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73187 surface.update_clip_caps(view) 
    73188 File
    73189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73190 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73191 subdivision = settings.clipping_cap_subdivision) 
    73192 File
    73193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73194 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73195 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73196 File
    73197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73198 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73199 cm.set_geometry(varray, narray, tarray) 
    73200 File
    73201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73202 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73203 arv() 
    73204 File
    73205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73206 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73207 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73208 File
    73209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73210 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73211 s.vertex_colors = self.vertex_colors(report_stats) 
    73212 File
    73213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73214 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73215 values, outside = self.volume_values() 
    73216 File
    73217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73218 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73219 return self.offset_values(v, n, tf) 
    73220 File
    73221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73222 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73223 values, outside = self.vertex_values(v, xf) 
    73224 File
    73225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73226 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73227 out_of_bounds_list = True) 
    73228 File
    73229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73230 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73231 subregion, step) 
    73232 File
    73233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73234 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73235 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73236 File
    73237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73238 packages/chimerax/map/volume.py", line 1243, in
    73239 matrix_indices_to_xyz_transform 
    73240 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73241 File
    73242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73243 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73244 r = self.subregion(step, subregion) 
    73245 File
    73246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73247 packages/chimerax/map/volume.py", line 1558, in subregion 
    73248 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73249 AttributeError: 'NoneType' object has no attribute 'size' 
    73250  
    73251 AttributeError: 'NoneType' object has no attribute 'size' 
    73252  
    73253 File
    73254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73255 packages/chimerax/map/volume.py", line 1558, in subregion 
    73256 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73257  
    73258 See log for complete Python traceback. 
    73259  
    73260 Traceback (most recent call last): 
    73261 File
    73262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73263 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73264 drew = self.draw_new_frame() 
    73265 File
    73266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73267 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73268 surface.update_clip_caps(view) 
    73269 File
    73270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73271 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73272 subdivision = settings.clipping_cap_subdivision) 
    73273 File
    73274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73275 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73276 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73277 File
    73278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73279 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73280 cm.set_geometry(varray, narray, tarray) 
    73281 File
    73282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73283 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73284 arv() 
    73285 File
    73286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73287 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73288 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73289 File
    73290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73291 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73292 s.vertex_colors = self.vertex_colors(report_stats) 
    73293 File
    73294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73295 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73296 values, outside = self.volume_values() 
    73297 File
    73298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73299 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73300 return self.offset_values(v, n, tf) 
    73301 File
    73302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73303 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73304 values, outside = self.vertex_values(v, xf) 
    73305 File
    73306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73307 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73308 out_of_bounds_list = True) 
    73309 File
    73310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73311 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73312 subregion, step) 
    73313 File
    73314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73315 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73316 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73317 File
    73318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73319 packages/chimerax/map/volume.py", line 1243, in
    73320 matrix_indices_to_xyz_transform 
    73321 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73322 File
    73323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73324 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73325 r = self.subregion(step, subregion) 
    73326 File
    73327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73328 packages/chimerax/map/volume.py", line 1558, in subregion 
    73329 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73330 AttributeError: 'NoneType' object has no attribute 'size' 
    73331  
    73332 AttributeError: 'NoneType' object has no attribute 'size' 
    73333  
    73334 File
    73335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73336 packages/chimerax/map/volume.py", line 1558, in subregion 
    73337 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73338  
    73339 See log for complete Python traceback. 
    73340  
    73341 Traceback (most recent call last): 
    73342 File
    73343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73344 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73345 drew = self.draw_new_frame() 
    73346 File
    73347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73348 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73349 surface.update_clip_caps(view) 
    73350 File
    73351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73352 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73353 subdivision = settings.clipping_cap_subdivision) 
    73354 File
    73355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73356 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73357 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73358 File
    73359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73360 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73361 cm.set_geometry(varray, narray, tarray) 
    73362 File
    73363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73364 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73365 arv() 
    73366 File
    73367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73368 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73369 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73370 File
    73371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73372 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73373 s.vertex_colors = self.vertex_colors(report_stats) 
    73374 File
    73375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73376 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73377 values, outside = self.volume_values() 
    73378 File
    73379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73380 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73381 return self.offset_values(v, n, tf) 
    73382 File
    73383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73384 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73385 values, outside = self.vertex_values(v, xf) 
    73386 File
    73387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73388 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73389 out_of_bounds_list = True) 
    73390 File
    73391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73392 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73393 subregion, step) 
    73394 File
    73395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73396 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73397 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73398 File
    73399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73400 packages/chimerax/map/volume.py", line 1243, in
    73401 matrix_indices_to_xyz_transform 
    73402 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73403 File
    73404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73405 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73406 r = self.subregion(step, subregion) 
    73407 File
    73408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73409 packages/chimerax/map/volume.py", line 1558, in subregion 
    73410 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73411 AttributeError: 'NoneType' object has no attribute 'size' 
    73412  
    73413 AttributeError: 'NoneType' object has no attribute 'size' 
    73414  
    73415 File
    73416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73417 packages/chimerax/map/volume.py", line 1558, in subregion 
    73418 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73419  
    73420 See log for complete Python traceback. 
    73421  
    73422 Traceback (most recent call last): 
    73423 File
    73424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73425 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73426 drew = self.draw_new_frame() 
    73427 File
    73428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73429 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73430 surface.update_clip_caps(view) 
    73431 File
    73432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73433 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73434 subdivision = settings.clipping_cap_subdivision) 
    73435 File
    73436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73437 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73438 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73439 File
    73440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73441 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73442 cm.set_geometry(varray, narray, tarray) 
    73443 File
    73444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73445 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73446 arv() 
    73447 File
    73448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73449 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73450 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73451 File
    73452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73453 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73454 s.vertex_colors = self.vertex_colors(report_stats) 
    73455 File
    73456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73457 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73458 values, outside = self.volume_values() 
    73459 File
    73460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73461 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73462 return self.offset_values(v, n, tf) 
    73463 File
    73464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73465 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73466 values, outside = self.vertex_values(v, xf) 
    73467 File
    73468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73469 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73470 out_of_bounds_list = True) 
    73471 File
    73472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73473 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73474 subregion, step) 
    73475 File
    73476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73477 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73478 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73479 File
    73480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73481 packages/chimerax/map/volume.py", line 1243, in
    73482 matrix_indices_to_xyz_transform 
    73483 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73484 File
    73485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73486 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73487 r = self.subregion(step, subregion) 
    73488 File
    73489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73490 packages/chimerax/map/volume.py", line 1558, in subregion 
    73491 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73492 AttributeError: 'NoneType' object has no attribute 'size' 
    73493  
    73494 AttributeError: 'NoneType' object has no attribute 'size' 
    73495  
    73496 File
    73497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73498 packages/chimerax/map/volume.py", line 1558, in subregion 
    73499 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73500  
    73501 See log for complete Python traceback. 
    73502  
    73503 Traceback (most recent call last): 
    73504 File
    73505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73506 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73507 drew = self.draw_new_frame() 
    73508 File
    73509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73510 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73511 surface.update_clip_caps(view) 
    73512 File
    73513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73514 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73515 subdivision = settings.clipping_cap_subdivision) 
    73516 File
    73517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73518 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73519 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73520 File
    73521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73522 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73523 cm.set_geometry(varray, narray, tarray) 
    73524 File
    73525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73526 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73527 arv() 
    73528 File
    73529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73530 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73531 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73532 File
    73533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73534 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73535 s.vertex_colors = self.vertex_colors(report_stats) 
    73536 File
    73537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73538 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73539 values, outside = self.volume_values() 
    73540 File
    73541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73542 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73543 return self.offset_values(v, n, tf) 
    73544 File
    73545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73546 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73547 values, outside = self.vertex_values(v, xf) 
    73548 File
    73549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73550 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73551 out_of_bounds_list = True) 
    73552 File
    73553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73554 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73555 subregion, step) 
    73556 File
    73557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73558 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73559 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73560 File
    73561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73562 packages/chimerax/map/volume.py", line 1243, in
    73563 matrix_indices_to_xyz_transform 
    73564 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73565 File
    73566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73567 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73568 r = self.subregion(step, subregion) 
    73569 File
    73570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73571 packages/chimerax/map/volume.py", line 1558, in subregion 
    73572 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73573 AttributeError: 'NoneType' object has no attribute 'size' 
    73574  
    73575 AttributeError: 'NoneType' object has no attribute 'size' 
    73576  
    73577 File
    73578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73579 packages/chimerax/map/volume.py", line 1558, in subregion 
    73580 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73581  
    73582 See log for complete Python traceback. 
    73583  
    73584 Traceback (most recent call last): 
    73585 File
    73586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73587 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73588 drew = self.draw_new_frame() 
    73589 File
    73590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73591 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73592 surface.update_clip_caps(view) 
    73593 File
    73594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73595 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73596 subdivision = settings.clipping_cap_subdivision) 
    73597 File
    73598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73599 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73600 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73601 File
    73602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73603 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73604 cm.set_geometry(varray, narray, tarray) 
    73605 File
    73606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73607 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73608 arv() 
    73609 File
    73610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73611 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73612 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73613 File
    73614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73615 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73616 s.vertex_colors = self.vertex_colors(report_stats) 
    73617 File
    73618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73619 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73620 values, outside = self.volume_values() 
    73621 File
    73622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73623 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73624 return self.offset_values(v, n, tf) 
    73625 File
    73626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73627 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73628 values, outside = self.vertex_values(v, xf) 
    73629 File
    73630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73631 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73632 out_of_bounds_list = True) 
    73633 File
    73634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73635 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73636 subregion, step) 
    73637 File
    73638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73639 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73640 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73641 File
    73642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73643 packages/chimerax/map/volume.py", line 1243, in
    73644 matrix_indices_to_xyz_transform 
    73645 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73646 File
    73647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73648 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73649 r = self.subregion(step, subregion) 
    73650 File
    73651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73652 packages/chimerax/map/volume.py", line 1558, in subregion 
    73653 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73654 AttributeError: 'NoneType' object has no attribute 'size' 
    73655  
    73656 AttributeError: 'NoneType' object has no attribute 'size' 
    73657  
    73658 File
    73659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73660 packages/chimerax/map/volume.py", line 1558, in subregion 
    73661 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73662  
    73663 See log for complete Python traceback. 
    73664  
    73665 Traceback (most recent call last): 
    73666 File
    73667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73668 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73669 drew = self.draw_new_frame() 
    73670 File
    73671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73672 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73673 surface.update_clip_caps(view) 
    73674 File
    73675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73676 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73677 subdivision = settings.clipping_cap_subdivision) 
    73678 File
    73679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73680 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73681 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73682 File
    73683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73684 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73685 cm.set_geometry(varray, narray, tarray) 
    73686 File
    73687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73688 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73689 arv() 
    73690 File
    73691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73692 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73693 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73694 File
    73695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73696 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73697 s.vertex_colors = self.vertex_colors(report_stats) 
    73698 File
    73699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73700 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73701 values, outside = self.volume_values() 
    73702 File
    73703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73704 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73705 return self.offset_values(v, n, tf) 
    73706 File
    73707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73708 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73709 values, outside = self.vertex_values(v, xf) 
    73710 File
    73711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73712 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73713 out_of_bounds_list = True) 
    73714 File
    73715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73716 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73717 subregion, step) 
    73718 File
    73719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73720 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73721 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73722 File
    73723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73724 packages/chimerax/map/volume.py", line 1243, in
    73725 matrix_indices_to_xyz_transform 
    73726 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73727 File
    73728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73729 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73730 r = self.subregion(step, subregion) 
    73731 File
    73732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73733 packages/chimerax/map/volume.py", line 1558, in subregion 
    73734 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73735 AttributeError: 'NoneType' object has no attribute 'size' 
    73736  
    73737 AttributeError: 'NoneType' object has no attribute 'size' 
    73738  
    73739 File
    73740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73741 packages/chimerax/map/volume.py", line 1558, in subregion 
    73742 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73743  
    73744 See log for complete Python traceback. 
    73745  
    73746 Traceback (most recent call last): 
    73747 File
    73748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73749 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73750 drew = self.draw_new_frame() 
    73751 File
    73752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73753 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73754 surface.update_clip_caps(view) 
    73755 File
    73756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73757 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73758 subdivision = settings.clipping_cap_subdivision) 
    73759 File
    73760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73761 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73762 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73763 File
    73764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73765 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73766 cm.set_geometry(varray, narray, tarray) 
    73767 File
    73768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73769 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73770 arv() 
    73771 File
    73772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73773 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73774 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73775 File
    73776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73777 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73778 s.vertex_colors = self.vertex_colors(report_stats) 
    73779 File
    73780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73781 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73782 values, outside = self.volume_values() 
    73783 File
    73784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73785 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73786 return self.offset_values(v, n, tf) 
    73787 File
    73788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73789 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73790 values, outside = self.vertex_values(v, xf) 
    73791 File
    73792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73793 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73794 out_of_bounds_list = True) 
    73795 File
    73796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73797 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73798 subregion, step) 
    73799 File
    73800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73801 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73802 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73803 File
    73804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73805 packages/chimerax/map/volume.py", line 1243, in
    73806 matrix_indices_to_xyz_transform 
    73807 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73808 File
    73809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73810 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73811 r = self.subregion(step, subregion) 
    73812 File
    73813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73814 packages/chimerax/map/volume.py", line 1558, in subregion 
    73815 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73816 AttributeError: 'NoneType' object has no attribute 'size' 
    73817  
    73818 AttributeError: 'NoneType' object has no attribute 'size' 
    73819  
    73820 File
    73821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73822 packages/chimerax/map/volume.py", line 1558, in subregion 
    73823 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73824  
    73825 See log for complete Python traceback. 
    73826  
    73827 Traceback (most recent call last): 
    73828 File
    73829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73830 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73831 drew = self.draw_new_frame() 
    73832 File
    73833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73834 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73835 surface.update_clip_caps(view) 
    73836 File
    73837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73838 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73839 subdivision = settings.clipping_cap_subdivision) 
    73840 File
    73841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73842 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73843 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73844 File
    73845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73846 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73847 cm.set_geometry(varray, narray, tarray) 
    73848 File
    73849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73850 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73851 arv() 
    73852 File
    73853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73854 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73855 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73856 File
    73857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73858 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73859 s.vertex_colors = self.vertex_colors(report_stats) 
    73860 File
    73861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73862 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73863 values, outside = self.volume_values() 
    73864 File
    73865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73866 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73867 return self.offset_values(v, n, tf) 
    73868 File
    73869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73870 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73871 values, outside = self.vertex_values(v, xf) 
    73872 File
    73873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73874 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73875 out_of_bounds_list = True) 
    73876 File
    73877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73878 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73879 subregion, step) 
    73880 File
    73881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73882 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73883 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73884 File
    73885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73886 packages/chimerax/map/volume.py", line 1243, in
    73887 matrix_indices_to_xyz_transform 
    73888 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73889 File
    73890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73891 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73892 r = self.subregion(step, subregion) 
    73893 File
    73894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73895 packages/chimerax/map/volume.py", line 1558, in subregion 
    73896 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73897 AttributeError: 'NoneType' object has no attribute 'size' 
    73898  
    73899 AttributeError: 'NoneType' object has no attribute 'size' 
    73900  
    73901 File
    73902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73903 packages/chimerax/map/volume.py", line 1558, in subregion 
    73904 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73905  
    73906 See log for complete Python traceback. 
    73907  
    73908 Traceback (most recent call last): 
    73909 File
    73910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73911 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73912 drew = self.draw_new_frame() 
    73913 File
    73914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73915 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73916 surface.update_clip_caps(view) 
    73917 File
    73918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73919 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    73920 subdivision = settings.clipping_cap_subdivision) 
    73921 File
    73922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73923 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    73924 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    73925 File
    73926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73927 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    73928 cm.set_geometry(varray, narray, tarray) 
    73929 File
    73930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73931 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    73932 arv() 
    73933 File
    73934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73935 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    73936 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    73937 File
    73938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73939 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    73940 s.vertex_colors = self.vertex_colors(report_stats) 
    73941 File
    73942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73943 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    73944 values, outside = self.volume_values() 
    73945 File
    73946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73947 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    73948 return self.offset_values(v, n, tf) 
    73949 File
    73950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73951 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    73952 values, outside = self.vertex_values(v, xf) 
    73953 File
    73954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73955 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    73956 out_of_bounds_list = True) 
    73957 File
    73958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73959 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    73960 subregion, step) 
    73961 File
    73962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73963 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    73964 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    73965 File
    73966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73967 packages/chimerax/map/volume.py", line 1243, in
    73968 matrix_indices_to_xyz_transform 
    73969 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    73970 File
    73971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73972 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    73973 r = self.subregion(step, subregion) 
    73974 File
    73975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73976 packages/chimerax/map/volume.py", line 1558, in subregion 
    73977 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73978 AttributeError: 'NoneType' object has no attribute 'size' 
    73979  
    73980 AttributeError: 'NoneType' object has no attribute 'size' 
    73981  
    73982 File
    73983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73984 packages/chimerax/map/volume.py", line 1558, in subregion 
    73985 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    73986  
    73987 See log for complete Python traceback. 
    73988  
    73989 Traceback (most recent call last): 
    73990 File
    73991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73992 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    73993 drew = self.draw_new_frame() 
    73994 File
    73995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    73996 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    73997 surface.update_clip_caps(view) 
    73998 File
    73999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74000 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74001 subdivision = settings.clipping_cap_subdivision) 
    74002 File
    74003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74004 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74005 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74006 File
    74007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74008 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74009 cm.set_geometry(varray, narray, tarray) 
    74010 File
    74011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74012 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74013 arv() 
    74014 File
    74015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74016 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74017 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74018 File
    74019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74020 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74021 s.vertex_colors = self.vertex_colors(report_stats) 
    74022 File
    74023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74024 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74025 values, outside = self.volume_values() 
    74026 File
    74027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74028 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74029 return self.offset_values(v, n, tf) 
    74030 File
    74031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74032 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74033 values, outside = self.vertex_values(v, xf) 
    74034 File
    74035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74036 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74037 out_of_bounds_list = True) 
    74038 File
    74039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74040 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74041 subregion, step) 
    74042 File
    74043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74044 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74045 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74046 File
    74047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74048 packages/chimerax/map/volume.py", line 1243, in
    74049 matrix_indices_to_xyz_transform 
    74050 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74051 File
    74052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74053 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74054 r = self.subregion(step, subregion) 
    74055 File
    74056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74057 packages/chimerax/map/volume.py", line 1558, in subregion 
    74058 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74059 AttributeError: 'NoneType' object has no attribute 'size' 
    74060  
    74061 AttributeError: 'NoneType' object has no attribute 'size' 
    74062  
    74063 File
    74064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74065 packages/chimerax/map/volume.py", line 1558, in subregion 
    74066 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74067  
    74068 See log for complete Python traceback. 
    74069  
    74070 Traceback (most recent call last): 
    74071 File
    74072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74073 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74074 drew = self.draw_new_frame() 
    74075 File
    74076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74077 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74078 surface.update_clip_caps(view) 
    74079 File
    74080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74081 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74082 subdivision = settings.clipping_cap_subdivision) 
    74083 File
    74084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74085 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74086 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74087 File
    74088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74089 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74090 cm.set_geometry(varray, narray, tarray) 
    74091 File
    74092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74093 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74094 arv() 
    74095 File
    74096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74097 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74098 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74099 File
    74100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74101 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74102 s.vertex_colors = self.vertex_colors(report_stats) 
    74103 File
    74104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74105 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74106 values, outside = self.volume_values() 
    74107 File
    74108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74109 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74110 return self.offset_values(v, n, tf) 
    74111 File
    74112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74113 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74114 values, outside = self.vertex_values(v, xf) 
    74115 File
    74116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74117 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74118 out_of_bounds_list = True) 
    74119 File
    74120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74121 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74122 subregion, step) 
    74123 File
    74124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74125 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74126 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74127 File
    74128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74129 packages/chimerax/map/volume.py", line 1243, in
    74130 matrix_indices_to_xyz_transform 
    74131 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74132 File
    74133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74134 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74135 r = self.subregion(step, subregion) 
    74136 File
    74137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74138 packages/chimerax/map/volume.py", line 1558, in subregion 
    74139 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74140 AttributeError: 'NoneType' object has no attribute 'size' 
    74141  
    74142 AttributeError: 'NoneType' object has no attribute 'size' 
    74143  
    74144 File
    74145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74146 packages/chimerax/map/volume.py", line 1558, in subregion 
    74147 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74148  
    74149 See log for complete Python traceback. 
    74150  
    74151 Traceback (most recent call last): 
    74152 File
    74153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74154 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74155 drew = self.draw_new_frame() 
    74156 File
    74157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74158 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74159 surface.update_clip_caps(view) 
    74160 File
    74161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74162 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74163 subdivision = settings.clipping_cap_subdivision) 
    74164 File
    74165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74166 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74167 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74168 File
    74169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74170 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74171 cm.set_geometry(varray, narray, tarray) 
    74172 File
    74173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74174 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74175 arv() 
    74176 File
    74177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74178 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74179 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74180 File
    74181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74182 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74183 s.vertex_colors = self.vertex_colors(report_stats) 
    74184 File
    74185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74186 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74187 values, outside = self.volume_values() 
    74188 File
    74189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74190 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74191 return self.offset_values(v, n, tf) 
    74192 File
    74193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74194 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74195 values, outside = self.vertex_values(v, xf) 
    74196 File
    74197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74198 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74199 out_of_bounds_list = True) 
    74200 File
    74201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74202 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74203 subregion, step) 
    74204 File
    74205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74206 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74207 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74208 File
    74209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74210 packages/chimerax/map/volume.py", line 1243, in
    74211 matrix_indices_to_xyz_transform 
    74212 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74213 File
    74214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74215 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74216 r = self.subregion(step, subregion) 
    74217 File
    74218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74219 packages/chimerax/map/volume.py", line 1558, in subregion 
    74220 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74221 AttributeError: 'NoneType' object has no attribute 'size' 
    74222  
    74223 AttributeError: 'NoneType' object has no attribute 'size' 
    74224  
    74225 File
    74226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74227 packages/chimerax/map/volume.py", line 1558, in subregion 
    74228 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74229  
    74230 See log for complete Python traceback. 
    74231  
    74232 Traceback (most recent call last): 
    74233 File
    74234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74235 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74236 drew = self.draw_new_frame() 
    74237 File
    74238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74239 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74240 surface.update_clip_caps(view) 
    74241 File
    74242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74243 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74244 subdivision = settings.clipping_cap_subdivision) 
    74245 File
    74246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74247 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74248 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74249 File
    74250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74251 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74252 cm.set_geometry(varray, narray, tarray) 
    74253 File
    74254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74255 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74256 arv() 
    74257 File
    74258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74259 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74260 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74261 File
    74262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74263 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74264 s.vertex_colors = self.vertex_colors(report_stats) 
    74265 File
    74266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74267 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74268 values, outside = self.volume_values() 
    74269 File
    74270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74271 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74272 return self.offset_values(v, n, tf) 
    74273 File
    74274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74275 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74276 values, outside = self.vertex_values(v, xf) 
    74277 File
    74278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74279 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74280 out_of_bounds_list = True) 
    74281 File
    74282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74283 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74284 subregion, step) 
    74285 File
    74286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74287 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74288 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74289 File
    74290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74291 packages/chimerax/map/volume.py", line 1243, in
    74292 matrix_indices_to_xyz_transform 
    74293 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74294 File
    74295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74296 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74297 r = self.subregion(step, subregion) 
    74298 File
    74299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74300 packages/chimerax/map/volume.py", line 1558, in subregion 
    74301 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74302 AttributeError: 'NoneType' object has no attribute 'size' 
    74303  
    74304 AttributeError: 'NoneType' object has no attribute 'size' 
    74305  
    74306 File
    74307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74308 packages/chimerax/map/volume.py", line 1558, in subregion 
    74309 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74310  
    74311 See log for complete Python traceback. 
    74312  
    74313 Traceback (most recent call last): 
    74314 File
    74315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74316 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74317 drew = self.draw_new_frame() 
    74318 File
    74319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74320 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74321 surface.update_clip_caps(view) 
    74322 File
    74323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74324 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74325 subdivision = settings.clipping_cap_subdivision) 
    74326 File
    74327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74328 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74329 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74330 File
    74331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74332 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74333 cm.set_geometry(varray, narray, tarray) 
    74334 File
    74335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74336 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74337 arv() 
    74338 File
    74339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74340 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74341 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74342 File
    74343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74344 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74345 s.vertex_colors = self.vertex_colors(report_stats) 
    74346 File
    74347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74348 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74349 values, outside = self.volume_values() 
    74350 File
    74351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74352 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74353 return self.offset_values(v, n, tf) 
    74354 File
    74355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74356 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74357 values, outside = self.vertex_values(v, xf) 
    74358 File
    74359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74360 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74361 out_of_bounds_list = True) 
    74362 File
    74363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74364 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74365 subregion, step) 
    74366 File
    74367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74368 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74369 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74370 File
    74371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74372 packages/chimerax/map/volume.py", line 1243, in
    74373 matrix_indices_to_xyz_transform 
    74374 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74375 File
    74376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74377 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74378 r = self.subregion(step, subregion) 
    74379 File
    74380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74381 packages/chimerax/map/volume.py", line 1558, in subregion 
    74382 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74383 AttributeError: 'NoneType' object has no attribute 'size' 
    74384  
    74385 AttributeError: 'NoneType' object has no attribute 'size' 
    74386  
    74387 File
    74388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74389 packages/chimerax/map/volume.py", line 1558, in subregion 
    74390 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74391  
    74392 See log for complete Python traceback. 
    74393  
    74394 Traceback (most recent call last): 
    74395 File
    74396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74397 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74398 drew = self.draw_new_frame() 
    74399 File
    74400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74401 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74402 surface.update_clip_caps(view) 
    74403 File
    74404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74405 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74406 subdivision = settings.clipping_cap_subdivision) 
    74407 File
    74408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74409 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74410 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74411 File
    74412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74413 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74414 cm.set_geometry(varray, narray, tarray) 
    74415 File
    74416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74417 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74418 arv() 
    74419 File
    74420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74421 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74422 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74423 File
    74424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74425 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74426 s.vertex_colors = self.vertex_colors(report_stats) 
    74427 File
    74428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74429 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74430 values, outside = self.volume_values() 
    74431 File
    74432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74433 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74434 return self.offset_values(v, n, tf) 
    74435 File
    74436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74437 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74438 values, outside = self.vertex_values(v, xf) 
    74439 File
    74440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74441 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74442 out_of_bounds_list = True) 
    74443 File
    74444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74445 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74446 subregion, step) 
    74447 File
    74448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74449 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74450 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74451 File
    74452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74453 packages/chimerax/map/volume.py", line 1243, in
    74454 matrix_indices_to_xyz_transform 
    74455 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74456 File
    74457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74458 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74459 r = self.subregion(step, subregion) 
    74460 File
    74461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74462 packages/chimerax/map/volume.py", line 1558, in subregion 
    74463 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74464 AttributeError: 'NoneType' object has no attribute 'size' 
    74465  
    74466 AttributeError: 'NoneType' object has no attribute 'size' 
    74467  
    74468 File
    74469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74470 packages/chimerax/map/volume.py", line 1558, in subregion 
    74471 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74472  
    74473 See log for complete Python traceback. 
    74474  
    74475 Traceback (most recent call last): 
    74476 File
    74477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74478 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74479 drew = self.draw_new_frame() 
    74480 File
    74481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74482 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74483 surface.update_clip_caps(view) 
    74484 File
    74485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74486 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74487 subdivision = settings.clipping_cap_subdivision) 
    74488 File
    74489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74490 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74491 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74492 File
    74493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74494 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74495 cm.set_geometry(varray, narray, tarray) 
    74496 File
    74497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74498 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74499 arv() 
    74500 File
    74501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74502 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74503 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74504 File
    74505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74506 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74507 s.vertex_colors = self.vertex_colors(report_stats) 
    74508 File
    74509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74510 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74511 values, outside = self.volume_values() 
    74512 File
    74513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74514 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74515 return self.offset_values(v, n, tf) 
    74516 File
    74517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74518 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74519 values, outside = self.vertex_values(v, xf) 
    74520 File
    74521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74522 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74523 out_of_bounds_list = True) 
    74524 File
    74525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74526 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74527 subregion, step) 
    74528 File
    74529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74530 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74531 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74532 File
    74533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74534 packages/chimerax/map/volume.py", line 1243, in
    74535 matrix_indices_to_xyz_transform 
    74536 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74537 File
    74538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74539 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74540 r = self.subregion(step, subregion) 
    74541 File
    74542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74543 packages/chimerax/map/volume.py", line 1558, in subregion 
    74544 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74545 AttributeError: 'NoneType' object has no attribute 'size' 
    74546  
    74547 AttributeError: 'NoneType' object has no attribute 'size' 
    74548  
    74549 File
    74550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74551 packages/chimerax/map/volume.py", line 1558, in subregion 
    74552 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74553  
    74554 See log for complete Python traceback. 
    74555  
    74556 Traceback (most recent call last): 
    74557 File
    74558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74559 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74560 drew = self.draw_new_frame() 
    74561 File
    74562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74563 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74564 surface.update_clip_caps(view) 
    74565 File
    74566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74567 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74568 subdivision = settings.clipping_cap_subdivision) 
    74569 File
    74570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74571 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74572 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74573 File
    74574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74575 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74576 cm.set_geometry(varray, narray, tarray) 
    74577 File
    74578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74579 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74580 arv() 
    74581 File
    74582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74583 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74584 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74585 File
    74586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74587 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74588 s.vertex_colors = self.vertex_colors(report_stats) 
    74589 File
    74590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74591 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74592 values, outside = self.volume_values() 
    74593 File
    74594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74595 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74596 return self.offset_values(v, n, tf) 
    74597 File
    74598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74599 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74600 values, outside = self.vertex_values(v, xf) 
    74601 File
    74602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74603 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74604 out_of_bounds_list = True) 
    74605 File
    74606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74607 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74608 subregion, step) 
    74609 File
    74610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74611 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74612 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74613 File
    74614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74615 packages/chimerax/map/volume.py", line 1243, in
    74616 matrix_indices_to_xyz_transform 
    74617 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74618 File
    74619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74620 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74621 r = self.subregion(step, subregion) 
    74622 File
    74623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74624 packages/chimerax/map/volume.py", line 1558, in subregion 
    74625 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74626 AttributeError: 'NoneType' object has no attribute 'size' 
    74627  
    74628 AttributeError: 'NoneType' object has no attribute 'size' 
    74629  
    74630 File
    74631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74632 packages/chimerax/map/volume.py", line 1558, in subregion 
    74633 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74634  
    74635 See log for complete Python traceback. 
    74636  
    74637 Traceback (most recent call last): 
    74638 File
    74639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74640 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74641 drew = self.draw_new_frame() 
    74642 File
    74643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74644 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74645 surface.update_clip_caps(view) 
    74646 File
    74647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74648 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74649 subdivision = settings.clipping_cap_subdivision) 
    74650 File
    74651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74652 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74653 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74654 File
    74655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74656 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74657 cm.set_geometry(varray, narray, tarray) 
    74658 File
    74659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74660 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74661 arv() 
    74662 File
    74663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74664 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74665 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74666 File
    74667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74668 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74669 s.vertex_colors = self.vertex_colors(report_stats) 
    74670 File
    74671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74672 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74673 values, outside = self.volume_values() 
    74674 File
    74675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74676 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74677 return self.offset_values(v, n, tf) 
    74678 File
    74679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74680 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74681 values, outside = self.vertex_values(v, xf) 
    74682 File
    74683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74684 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74685 out_of_bounds_list = True) 
    74686 File
    74687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74688 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74689 subregion, step) 
    74690 File
    74691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74692 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74693 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74694 File
    74695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74696 packages/chimerax/map/volume.py", line 1243, in
    74697 matrix_indices_to_xyz_transform 
    74698 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74699 File
    74700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74701 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74702 r = self.subregion(step, subregion) 
    74703 File
    74704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74705 packages/chimerax/map/volume.py", line 1558, in subregion 
    74706 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74707 AttributeError: 'NoneType' object has no attribute 'size' 
    74708  
    74709 AttributeError: 'NoneType' object has no attribute 'size' 
    74710  
    74711 File
    74712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74713 packages/chimerax/map/volume.py", line 1558, in subregion 
    74714 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74715  
    74716 See log for complete Python traceback. 
    74717  
    74718 Traceback (most recent call last): 
    74719 File
    74720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74721 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74722 drew = self.draw_new_frame() 
    74723 File
    74724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74725 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74726 surface.update_clip_caps(view) 
    74727 File
    74728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74729 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74730 subdivision = settings.clipping_cap_subdivision) 
    74731 File
    74732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74733 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74734 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74735 File
    74736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74737 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74738 cm.set_geometry(varray, narray, tarray) 
    74739 File
    74740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74741 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74742 arv() 
    74743 File
    74744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74745 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74746 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74747 File
    74748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74749 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74750 s.vertex_colors = self.vertex_colors(report_stats) 
    74751 File
    74752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74753 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74754 values, outside = self.volume_values() 
    74755 File
    74756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74757 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74758 return self.offset_values(v, n, tf) 
    74759 File
    74760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74761 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74762 values, outside = self.vertex_values(v, xf) 
    74763 File
    74764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74765 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74766 out_of_bounds_list = True) 
    74767 File
    74768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74769 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74770 subregion, step) 
    74771 File
    74772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74773 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74774 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74775 File
    74776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74777 packages/chimerax/map/volume.py", line 1243, in
    74778 matrix_indices_to_xyz_transform 
    74779 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74780 File
    74781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74782 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74783 r = self.subregion(step, subregion) 
    74784 File
    74785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74786 packages/chimerax/map/volume.py", line 1558, in subregion 
    74787 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74788 AttributeError: 'NoneType' object has no attribute 'size' 
    74789  
    74790 AttributeError: 'NoneType' object has no attribute 'size' 
    74791  
    74792 File
    74793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74794 packages/chimerax/map/volume.py", line 1558, in subregion 
    74795 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74796  
    74797 See log for complete Python traceback. 
    74798  
    74799 Traceback (most recent call last): 
    74800 File
    74801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74802 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74803 drew = self.draw_new_frame() 
    74804 File
    74805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74806 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74807 surface.update_clip_caps(view) 
    74808 File
    74809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74810 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74811 subdivision = settings.clipping_cap_subdivision) 
    74812 File
    74813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74814 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74815 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74816 File
    74817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74818 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74819 cm.set_geometry(varray, narray, tarray) 
    74820 File
    74821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74822 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74823 arv() 
    74824 File
    74825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74826 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74827 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74828 File
    74829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74830 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74831 s.vertex_colors = self.vertex_colors(report_stats) 
    74832 File
    74833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74834 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74835 values, outside = self.volume_values() 
    74836 File
    74837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74838 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74839 return self.offset_values(v, n, tf) 
    74840 File
    74841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74842 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74843 values, outside = self.vertex_values(v, xf) 
    74844 File
    74845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74846 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74847 out_of_bounds_list = True) 
    74848 File
    74849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74850 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74851 subregion, step) 
    74852 File
    74853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74854 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74855 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74856 File
    74857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74858 packages/chimerax/map/volume.py", line 1243, in
    74859 matrix_indices_to_xyz_transform 
    74860 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74861 File
    74862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74863 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74864 r = self.subregion(step, subregion) 
    74865 File
    74866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74867 packages/chimerax/map/volume.py", line 1558, in subregion 
    74868 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74869 AttributeError: 'NoneType' object has no attribute 'size' 
    74870  
    74871 AttributeError: 'NoneType' object has no attribute 'size' 
    74872  
    74873 File
    74874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74875 packages/chimerax/map/volume.py", line 1558, in subregion 
    74876 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74877  
    74878 See log for complete Python traceback. 
    74879  
    74880 Traceback (most recent call last): 
    74881 File
    74882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74883 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74884 drew = self.draw_new_frame() 
    74885 File
    74886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74887 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74888 surface.update_clip_caps(view) 
    74889 File
    74890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74891 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74892 subdivision = settings.clipping_cap_subdivision) 
    74893 File
    74894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74895 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74896 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74897 File
    74898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74899 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74900 cm.set_geometry(varray, narray, tarray) 
    74901 File
    74902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74903 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74904 arv() 
    74905 File
    74906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74907 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74908 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74909 File
    74910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74911 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74912 s.vertex_colors = self.vertex_colors(report_stats) 
    74913 File
    74914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74915 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74916 values, outside = self.volume_values() 
    74917 File
    74918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74919 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    74920 return self.offset_values(v, n, tf) 
    74921 File
    74922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74923 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    74924 values, outside = self.vertex_values(v, xf) 
    74925 File
    74926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74927 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    74928 out_of_bounds_list = True) 
    74929 File
    74930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74931 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    74932 subregion, step) 
    74933 File
    74934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74935 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    74936 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    74937 File
    74938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74939 packages/chimerax/map/volume.py", line 1243, in
    74940 matrix_indices_to_xyz_transform 
    74941 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    74942 File
    74943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74944 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    74945 r = self.subregion(step, subregion) 
    74946 File
    74947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74948 packages/chimerax/map/volume.py", line 1558, in subregion 
    74949 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74950 AttributeError: 'NoneType' object has no attribute 'size' 
    74951  
    74952 AttributeError: 'NoneType' object has no attribute 'size' 
    74953  
    74954 File
    74955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74956 packages/chimerax/map/volume.py", line 1558, in subregion 
    74957 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    74958  
    74959 See log for complete Python traceback. 
    74960  
    74961 Traceback (most recent call last): 
    74962 File
    74963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74964 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    74965 drew = self.draw_new_frame() 
    74966 File
    74967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74968 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    74969 surface.update_clip_caps(view) 
    74970 File
    74971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74972 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    74973 subdivision = settings.clipping_cap_subdivision) 
    74974 File
    74975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74976 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    74977 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    74978 File
    74979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74980 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    74981 cm.set_geometry(varray, narray, tarray) 
    74982 File
    74983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74984 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    74985 arv() 
    74986 File
    74987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74988 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    74989 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    74990 File
    74991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74992 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    74993 s.vertex_colors = self.vertex_colors(report_stats) 
    74994 File
    74995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    74996 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    74997 values, outside = self.volume_values() 
    74998 File
    74999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75000 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75001 return self.offset_values(v, n, tf) 
    75002 File
    75003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75004 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75005 values, outside = self.vertex_values(v, xf) 
    75006 File
    75007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75008 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75009 out_of_bounds_list = True) 
    75010 File
    75011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75012 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75013 subregion, step) 
    75014 File
    75015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75016 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75017 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75018 File
    75019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75020 packages/chimerax/map/volume.py", line 1243, in
    75021 matrix_indices_to_xyz_transform 
    75022 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75023 File
    75024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75025 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75026 r = self.subregion(step, subregion) 
    75027 File
    75028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75029 packages/chimerax/map/volume.py", line 1558, in subregion 
    75030 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75031 AttributeError: 'NoneType' object has no attribute 'size' 
    75032  
    75033 AttributeError: 'NoneType' object has no attribute 'size' 
    75034  
    75035 File
    75036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75037 packages/chimerax/map/volume.py", line 1558, in subregion 
    75038 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75039  
    75040 See log for complete Python traceback. 
    75041  
    75042 Traceback (most recent call last): 
    75043 File
    75044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75045 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75046 drew = self.draw_new_frame() 
    75047 File
    75048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75049 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75050 surface.update_clip_caps(view) 
    75051 File
    75052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75053 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75054 subdivision = settings.clipping_cap_subdivision) 
    75055 File
    75056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75057 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75058 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75059 File
    75060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75061 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75062 cm.set_geometry(varray, narray, tarray) 
    75063 File
    75064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75065 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75066 arv() 
    75067 File
    75068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75069 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75070 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75071 File
    75072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75073 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75074 s.vertex_colors = self.vertex_colors(report_stats) 
    75075 File
    75076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75077 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75078 values, outside = self.volume_values() 
    75079 File
    75080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75081 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75082 return self.offset_values(v, n, tf) 
    75083 File
    75084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75085 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75086 values, outside = self.vertex_values(v, xf) 
    75087 File
    75088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75089 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75090 out_of_bounds_list = True) 
    75091 File
    75092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75093 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75094 subregion, step) 
    75095 File
    75096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75097 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75098 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75099 File
    75100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75101 packages/chimerax/map/volume.py", line 1243, in
    75102 matrix_indices_to_xyz_transform 
    75103 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75104 File
    75105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75106 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75107 r = self.subregion(step, subregion) 
    75108 File
    75109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75110 packages/chimerax/map/volume.py", line 1558, in subregion 
    75111 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75112 AttributeError: 'NoneType' object has no attribute 'size' 
    75113  
    75114 AttributeError: 'NoneType' object has no attribute 'size' 
    75115  
    75116 File
    75117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75118 packages/chimerax/map/volume.py", line 1558, in subregion 
    75119 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75120  
    75121 See log for complete Python traceback. 
    75122  
    75123 Traceback (most recent call last): 
    75124 File
    75125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75126 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75127 drew = self.draw_new_frame() 
    75128 File
    75129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75130 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75131 surface.update_clip_caps(view) 
    75132 File
    75133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75134 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75135 subdivision = settings.clipping_cap_subdivision) 
    75136 File
    75137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75138 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75139 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75140 File
    75141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75142 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75143 cm.set_geometry(varray, narray, tarray) 
    75144 File
    75145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75146 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75147 arv() 
    75148 File
    75149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75150 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75151 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75152 File
    75153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75154 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75155 s.vertex_colors = self.vertex_colors(report_stats) 
    75156 File
    75157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75158 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75159 values, outside = self.volume_values() 
    75160 File
    75161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75162 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75163 return self.offset_values(v, n, tf) 
    75164 File
    75165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75166 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75167 values, outside = self.vertex_values(v, xf) 
    75168 File
    75169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75170 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75171 out_of_bounds_list = True) 
    75172 File
    75173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75174 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75175 subregion, step) 
    75176 File
    75177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75178 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75179 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75180 File
    75181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75182 packages/chimerax/map/volume.py", line 1243, in
    75183 matrix_indices_to_xyz_transform 
    75184 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75185 File
    75186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75187 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75188 r = self.subregion(step, subregion) 
    75189 File
    75190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75191 packages/chimerax/map/volume.py", line 1558, in subregion 
    75192 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75193 AttributeError: 'NoneType' object has no attribute 'size' 
    75194  
    75195 AttributeError: 'NoneType' object has no attribute 'size' 
    75196  
    75197 File
    75198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75199 packages/chimerax/map/volume.py", line 1558, in subregion 
    75200 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75201  
    75202 See log for complete Python traceback. 
    75203  
    75204 Traceback (most recent call last): 
    75205 File
    75206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75207 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75208 drew = self.draw_new_frame() 
    75209 File
    75210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75211 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75212 surface.update_clip_caps(view) 
    75213 File
    75214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75215 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75216 subdivision = settings.clipping_cap_subdivision) 
    75217 File
    75218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75219 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75220 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75221 File
    75222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75223 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75224 cm.set_geometry(varray, narray, tarray) 
    75225 File
    75226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75227 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75228 arv() 
    75229 File
    75230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75231 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75232 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75233 File
    75234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75235 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75236 s.vertex_colors = self.vertex_colors(report_stats) 
    75237 File
    75238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75239 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75240 values, outside = self.volume_values() 
    75241 File
    75242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75243 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75244 return self.offset_values(v, n, tf) 
    75245 File
    75246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75247 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75248 values, outside = self.vertex_values(v, xf) 
    75249 File
    75250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75251 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75252 out_of_bounds_list = True) 
    75253 File
    75254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75255 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75256 subregion, step) 
    75257 File
    75258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75259 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75260 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75261 File
    75262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75263 packages/chimerax/map/volume.py", line 1243, in
    75264 matrix_indices_to_xyz_transform 
    75265 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75266 File
    75267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75268 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75269 r = self.subregion(step, subregion) 
    75270 File
    75271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75272 packages/chimerax/map/volume.py", line 1558, in subregion 
    75273 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75274 AttributeError: 'NoneType' object has no attribute 'size' 
    75275  
    75276 AttributeError: 'NoneType' object has no attribute 'size' 
    75277  
    75278 File
    75279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75280 packages/chimerax/map/volume.py", line 1558, in subregion 
    75281 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75282  
    75283 See log for complete Python traceback. 
    75284  
    75285 Traceback (most recent call last): 
    75286 File
    75287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75288 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75289 drew = self.draw_new_frame() 
    75290 File
    75291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75292 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75293 surface.update_clip_caps(view) 
    75294 File
    75295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75296 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75297 subdivision = settings.clipping_cap_subdivision) 
    75298 File
    75299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75300 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75301 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75302 File
    75303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75304 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75305 cm.set_geometry(varray, narray, tarray) 
    75306 File
    75307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75308 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75309 arv() 
    75310 File
    75311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75312 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75313 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75314 File
    75315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75316 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75317 s.vertex_colors = self.vertex_colors(report_stats) 
    75318 File
    75319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75320 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75321 values, outside = self.volume_values() 
    75322 File
    75323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75324 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75325 return self.offset_values(v, n, tf) 
    75326 File
    75327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75328 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75329 values, outside = self.vertex_values(v, xf) 
    75330 File
    75331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75332 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75333 out_of_bounds_list = True) 
    75334 File
    75335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75336 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75337 subregion, step) 
    75338 File
    75339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75340 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75341 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75342 File
    75343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75344 packages/chimerax/map/volume.py", line 1243, in
    75345 matrix_indices_to_xyz_transform 
    75346 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75347 File
    75348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75349 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75350 r = self.subregion(step, subregion) 
    75351 File
    75352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75353 packages/chimerax/map/volume.py", line 1558, in subregion 
    75354 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75355 AttributeError: 'NoneType' object has no attribute 'size' 
    75356  
    75357 AttributeError: 'NoneType' object has no attribute 'size' 
    75358  
    75359 File
    75360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75361 packages/chimerax/map/volume.py", line 1558, in subregion 
    75362 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75363  
    75364 See log for complete Python traceback. 
    75365  
    75366 Traceback (most recent call last): 
    75367 File
    75368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75369 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75370 drew = self.draw_new_frame() 
    75371 File
    75372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75373 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75374 surface.update_clip_caps(view) 
    75375 File
    75376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75377 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75378 subdivision = settings.clipping_cap_subdivision) 
    75379 File
    75380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75381 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75382 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75383 File
    75384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75385 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75386 cm.set_geometry(varray, narray, tarray) 
    75387 File
    75388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75389 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75390 arv() 
    75391 File
    75392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75393 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75394 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75395 File
    75396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75397 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75398 s.vertex_colors = self.vertex_colors(report_stats) 
    75399 File
    75400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75401 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75402 values, outside = self.volume_values() 
    75403 File
    75404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75405 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75406 return self.offset_values(v, n, tf) 
    75407 File
    75408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75409 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75410 values, outside = self.vertex_values(v, xf) 
    75411 File
    75412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75413 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75414 out_of_bounds_list = True) 
    75415 File
    75416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75417 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75418 subregion, step) 
    75419 File
    75420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75421 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75422 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75423 File
    75424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75425 packages/chimerax/map/volume.py", line 1243, in
    75426 matrix_indices_to_xyz_transform 
    75427 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75428 File
    75429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75430 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75431 r = self.subregion(step, subregion) 
    75432 File
    75433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75434 packages/chimerax/map/volume.py", line 1558, in subregion 
    75435 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75436 AttributeError: 'NoneType' object has no attribute 'size' 
    75437  
    75438 AttributeError: 'NoneType' object has no attribute 'size' 
    75439  
    75440 File
    75441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75442 packages/chimerax/map/volume.py", line 1558, in subregion 
    75443 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75444  
    75445 See log for complete Python traceback. 
    75446  
    75447 Traceback (most recent call last): 
    75448 File
    75449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75450 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75451 drew = self.draw_new_frame() 
    75452 File
    75453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75454 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75455 surface.update_clip_caps(view) 
    75456 File
    75457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75458 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75459 subdivision = settings.clipping_cap_subdivision) 
    75460 File
    75461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75462 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75463 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75464 File
    75465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75466 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75467 cm.set_geometry(varray, narray, tarray) 
    75468 File
    75469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75470 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75471 arv() 
    75472 File
    75473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75474 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75475 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75476 File
    75477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75478 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75479 s.vertex_colors = self.vertex_colors(report_stats) 
    75480 File
    75481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75482 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75483 values, outside = self.volume_values() 
    75484 File
    75485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75486 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75487 return self.offset_values(v, n, tf) 
    75488 File
    75489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75490 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75491 values, outside = self.vertex_values(v, xf) 
    75492 File
    75493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75494 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75495 out_of_bounds_list = True) 
    75496 File
    75497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75498 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75499 subregion, step) 
    75500 File
    75501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75502 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75503 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75504 File
    75505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75506 packages/chimerax/map/volume.py", line 1243, in
    75507 matrix_indices_to_xyz_transform 
    75508 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75509 File
    75510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75511 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75512 r = self.subregion(step, subregion) 
    75513 File
    75514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75515 packages/chimerax/map/volume.py", line 1558, in subregion 
    75516 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75517 AttributeError: 'NoneType' object has no attribute 'size' 
    75518  
    75519 AttributeError: 'NoneType' object has no attribute 'size' 
    75520  
    75521 File
    75522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75523 packages/chimerax/map/volume.py", line 1558, in subregion 
    75524 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75525  
    75526 See log for complete Python traceback. 
    75527  
    75528 Traceback (most recent call last): 
    75529 File
    75530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75531 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75532 drew = self.draw_new_frame() 
    75533 File
    75534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75535 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75536 surface.update_clip_caps(view) 
    75537 File
    75538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75539 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75540 subdivision = settings.clipping_cap_subdivision) 
    75541 File
    75542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75543 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75544 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75545 File
    75546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75547 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75548 cm.set_geometry(varray, narray, tarray) 
    75549 File
    75550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75551 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75552 arv() 
    75553 File
    75554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75555 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75556 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75557 File
    75558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75559 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75560 s.vertex_colors = self.vertex_colors(report_stats) 
    75561 File
    75562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75563 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75564 values, outside = self.volume_values() 
    75565 File
    75566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75567 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75568 return self.offset_values(v, n, tf) 
    75569 File
    75570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75571 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75572 values, outside = self.vertex_values(v, xf) 
    75573 File
    75574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75575 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75576 out_of_bounds_list = True) 
    75577 File
    75578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75579 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75580 subregion, step) 
    75581 File
    75582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75583 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75584 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75585 File
    75586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75587 packages/chimerax/map/volume.py", line 1243, in
    75588 matrix_indices_to_xyz_transform 
    75589 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75590 File
    75591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75592 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75593 r = self.subregion(step, subregion) 
    75594 File
    75595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75596 packages/chimerax/map/volume.py", line 1558, in subregion 
    75597 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75598 AttributeError: 'NoneType' object has no attribute 'size' 
    75599  
    75600 AttributeError: 'NoneType' object has no attribute 'size' 
    75601  
    75602 File
    75603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75604 packages/chimerax/map/volume.py", line 1558, in subregion 
    75605 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75606  
    75607 See log for complete Python traceback. 
    75608  
    75609 Traceback (most recent call last): 
    75610 File
    75611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75612 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75613 drew = self.draw_new_frame() 
    75614 File
    75615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75616 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75617 surface.update_clip_caps(view) 
    75618 File
    75619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75620 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75621 subdivision = settings.clipping_cap_subdivision) 
    75622 File
    75623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75624 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75625 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75626 File
    75627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75628 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75629 cm.set_geometry(varray, narray, tarray) 
    75630 File
    75631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75632 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75633 arv() 
    75634 File
    75635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75636 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75637 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75638 File
    75639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75640 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75641 s.vertex_colors = self.vertex_colors(report_stats) 
    75642 File
    75643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75644 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75645 values, outside = self.volume_values() 
    75646 File
    75647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75648 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75649 return self.offset_values(v, n, tf) 
    75650 File
    75651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75652 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75653 values, outside = self.vertex_values(v, xf) 
    75654 File
    75655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75656 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75657 out_of_bounds_list = True) 
    75658 File
    75659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75660 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75661 subregion, step) 
    75662 File
    75663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75664 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75665 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75666 File
    75667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75668 packages/chimerax/map/volume.py", line 1243, in
    75669 matrix_indices_to_xyz_transform 
    75670 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75671 File
    75672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75673 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75674 r = self.subregion(step, subregion) 
    75675 File
    75676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75677 packages/chimerax/map/volume.py", line 1558, in subregion 
    75678 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75679 AttributeError: 'NoneType' object has no attribute 'size' 
    75680  
    75681 AttributeError: 'NoneType' object has no attribute 'size' 
    75682  
    75683 File
    75684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75685 packages/chimerax/map/volume.py", line 1558, in subregion 
    75686 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75687  
    75688 See log for complete Python traceback. 
    75689  
    75690 Traceback (most recent call last): 
    75691 File
    75692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75693 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75694 drew = self.draw_new_frame() 
    75695 File
    75696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75697 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75698 surface.update_clip_caps(view) 
    75699 File
    75700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75701 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75702 subdivision = settings.clipping_cap_subdivision) 
    75703 File
    75704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75705 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75706 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75707 File
    75708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75709 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75710 cm.set_geometry(varray, narray, tarray) 
    75711 File
    75712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75713 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75714 arv() 
    75715 File
    75716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75717 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75718 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75719 File
    75720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75721 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75722 s.vertex_colors = self.vertex_colors(report_stats) 
    75723 File
    75724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75725 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75726 values, outside = self.volume_values() 
    75727 File
    75728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75729 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75730 return self.offset_values(v, n, tf) 
    75731 File
    75732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75733 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75734 values, outside = self.vertex_values(v, xf) 
    75735 File
    75736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75737 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75738 out_of_bounds_list = True) 
    75739 File
    75740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75741 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75742 subregion, step) 
    75743 File
    75744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75745 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75746 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75747 File
    75748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75749 packages/chimerax/map/volume.py", line 1243, in
    75750 matrix_indices_to_xyz_transform 
    75751 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75752 File
    75753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75754 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75755 r = self.subregion(step, subregion) 
    75756 File
    75757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75758 packages/chimerax/map/volume.py", line 1558, in subregion 
    75759 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75760 AttributeError: 'NoneType' object has no attribute 'size' 
    75761  
    75762 AttributeError: 'NoneType' object has no attribute 'size' 
    75763  
    75764 File
    75765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75766 packages/chimerax/map/volume.py", line 1558, in subregion 
    75767 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75768  
    75769 See log for complete Python traceback. 
    75770  
    75771 Traceback (most recent call last): 
    75772 File
    75773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75774 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75775 drew = self.draw_new_frame() 
    75776 File
    75777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75778 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75779 surface.update_clip_caps(view) 
    75780 File
    75781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75782 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75783 subdivision = settings.clipping_cap_subdivision) 
    75784 File
    75785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75786 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75787 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75788 File
    75789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75790 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75791 cm.set_geometry(varray, narray, tarray) 
    75792 File
    75793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75794 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75795 arv() 
    75796 File
    75797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75798 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75799 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75800 File
    75801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75802 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75803 s.vertex_colors = self.vertex_colors(report_stats) 
    75804 File
    75805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75806 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75807 values, outside = self.volume_values() 
    75808 File
    75809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75810 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75811 return self.offset_values(v, n, tf) 
    75812 File
    75813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75814 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75815 values, outside = self.vertex_values(v, xf) 
    75816 File
    75817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75818 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75819 out_of_bounds_list = True) 
    75820 File
    75821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75822 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75823 subregion, step) 
    75824 File
    75825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75826 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75827 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75828 File
    75829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75830 packages/chimerax/map/volume.py", line 1243, in
    75831 matrix_indices_to_xyz_transform 
    75832 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75833 File
    75834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75835 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75836 r = self.subregion(step, subregion) 
    75837 File
    75838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75839 packages/chimerax/map/volume.py", line 1558, in subregion 
    75840 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75841 AttributeError: 'NoneType' object has no attribute 'size' 
    75842  
    75843 AttributeError: 'NoneType' object has no attribute 'size' 
    75844  
    75845 File
    75846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75847 packages/chimerax/map/volume.py", line 1558, in subregion 
    75848 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75849  
    75850 See log for complete Python traceback. 
    75851  
    75852 Traceback (most recent call last): 
    75853 File
    75854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75855 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75856 drew = self.draw_new_frame() 
    75857 File
    75858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75859 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75860 surface.update_clip_caps(view) 
    75861 File
    75862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75863 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75864 subdivision = settings.clipping_cap_subdivision) 
    75865 File
    75866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75867 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75868 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75869 File
    75870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75871 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75872 cm.set_geometry(varray, narray, tarray) 
    75873 File
    75874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75875 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75876 arv() 
    75877 File
    75878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75879 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75880 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75881 File
    75882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75883 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75884 s.vertex_colors = self.vertex_colors(report_stats) 
    75885 File
    75886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75887 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75888 values, outside = self.volume_values() 
    75889 File
    75890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75891 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75892 return self.offset_values(v, n, tf) 
    75893 File
    75894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75895 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75896 values, outside = self.vertex_values(v, xf) 
    75897 File
    75898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75899 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75900 out_of_bounds_list = True) 
    75901 File
    75902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75903 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75904 subregion, step) 
    75905 File
    75906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75907 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75908 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75909 File
    75910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75911 packages/chimerax/map/volume.py", line 1243, in
    75912 matrix_indices_to_xyz_transform 
    75913 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75914 File
    75915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75916 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75917 r = self.subregion(step, subregion) 
    75918 File
    75919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75920 packages/chimerax/map/volume.py", line 1558, in subregion 
    75921 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75922 AttributeError: 'NoneType' object has no attribute 'size' 
    75923  
    75924 AttributeError: 'NoneType' object has no attribute 'size' 
    75925  
    75926 File
    75927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75928 packages/chimerax/map/volume.py", line 1558, in subregion 
    75929 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    75930  
    75931 See log for complete Python traceback. 
    75932  
    75933 Traceback (most recent call last): 
    75934 File
    75935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75936 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    75937 drew = self.draw_new_frame() 
    75938 File
    75939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75940 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    75941 surface.update_clip_caps(view) 
    75942 File
    75943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75944 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    75945 subdivision = settings.clipping_cap_subdivision) 
    75946 File
    75947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75948 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    75949 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    75950 File
    75951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75952 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    75953 cm.set_geometry(varray, narray, tarray) 
    75954 File
    75955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75956 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    75957 arv() 
    75958 File
    75959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75960 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    75961 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    75962 File
    75963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75964 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    75965 s.vertex_colors = self.vertex_colors(report_stats) 
    75966 File
    75967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75968 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    75969 values, outside = self.volume_values() 
    75970 File
    75971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75972 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    75973 return self.offset_values(v, n, tf) 
    75974 File
    75975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75976 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    75977 values, outside = self.vertex_values(v, xf) 
    75978 File
    75979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75980 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    75981 out_of_bounds_list = True) 
    75982 File
    75983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75984 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    75985 subregion, step) 
    75986 File
    75987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75988 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    75989 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    75990 File
    75991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75992 packages/chimerax/map/volume.py", line 1243, in
    75993 matrix_indices_to_xyz_transform 
    75994 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    75995 File
    75996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    75997 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    75998 r = self.subregion(step, subregion) 
    75999 File
    76000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76001 packages/chimerax/map/volume.py", line 1558, in subregion 
    76002 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76003 AttributeError: 'NoneType' object has no attribute 'size' 
    76004  
    76005 AttributeError: 'NoneType' object has no attribute 'size' 
    76006  
    76007 File
    76008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76009 packages/chimerax/map/volume.py", line 1558, in subregion 
    76010 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76011  
    76012 See log for complete Python traceback. 
    76013  
    76014 Traceback (most recent call last): 
    76015 File
    76016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76017 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76018 drew = self.draw_new_frame() 
    76019 File
    76020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76021 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76022 surface.update_clip_caps(view) 
    76023 File
    76024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76025 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76026 subdivision = settings.clipping_cap_subdivision) 
    76027 File
    76028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76029 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76030 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76031 File
    76032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76033 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76034 cm.set_geometry(varray, narray, tarray) 
    76035 File
    76036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76037 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76038 arv() 
    76039 File
    76040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76041 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76042 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76043 File
    76044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76045 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76046 s.vertex_colors = self.vertex_colors(report_stats) 
    76047 File
    76048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76049 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76050 values, outside = self.volume_values() 
    76051 File
    76052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76053 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76054 return self.offset_values(v, n, tf) 
    76055 File
    76056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76057 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76058 values, outside = self.vertex_values(v, xf) 
    76059 File
    76060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76061 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76062 out_of_bounds_list = True) 
    76063 File
    76064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76065 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76066 subregion, step) 
    76067 File
    76068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76069 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76070 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76071 File
    76072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76073 packages/chimerax/map/volume.py", line 1243, in
    76074 matrix_indices_to_xyz_transform 
    76075 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76076 File
    76077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76078 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76079 r = self.subregion(step, subregion) 
    76080 File
    76081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76082 packages/chimerax/map/volume.py", line 1558, in subregion 
    76083 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76084 AttributeError: 'NoneType' object has no attribute 'size' 
    76085  
    76086 AttributeError: 'NoneType' object has no attribute 'size' 
    76087  
    76088 File
    76089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76090 packages/chimerax/map/volume.py", line 1558, in subregion 
    76091 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76092  
    76093 See log for complete Python traceback. 
    76094  
    76095 Traceback (most recent call last): 
    76096 File
    76097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76098 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76099 drew = self.draw_new_frame() 
    76100 File
    76101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76102 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76103 surface.update_clip_caps(view) 
    76104 File
    76105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76106 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76107 subdivision = settings.clipping_cap_subdivision) 
    76108 File
    76109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76110 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76111 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76112 File
    76113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76114 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76115 cm.set_geometry(varray, narray, tarray) 
    76116 File
    76117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76118 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76119 arv() 
    76120 File
    76121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76122 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76123 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76124 File
    76125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76126 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76127 s.vertex_colors = self.vertex_colors(report_stats) 
    76128 File
    76129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76130 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76131 values, outside = self.volume_values() 
    76132 File
    76133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76134 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76135 return self.offset_values(v, n, tf) 
    76136 File
    76137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76138 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76139 values, outside = self.vertex_values(v, xf) 
    76140 File
    76141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76142 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76143 out_of_bounds_list = True) 
    76144 File
    76145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76146 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76147 subregion, step) 
    76148 File
    76149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76150 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76151 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76152 File
    76153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76154 packages/chimerax/map/volume.py", line 1243, in
    76155 matrix_indices_to_xyz_transform 
    76156 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76157 File
    76158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76159 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76160 r = self.subregion(step, subregion) 
    76161 File
    76162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76163 packages/chimerax/map/volume.py", line 1558, in subregion 
    76164 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76165 AttributeError: 'NoneType' object has no attribute 'size' 
    76166  
    76167 AttributeError: 'NoneType' object has no attribute 'size' 
    76168  
    76169 File
    76170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76171 packages/chimerax/map/volume.py", line 1558, in subregion 
    76172 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76173  
    76174 See log for complete Python traceback. 
    76175  
    76176 Traceback (most recent call last): 
    76177 File
    76178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76179 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76180 drew = self.draw_new_frame() 
    76181 File
    76182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76183 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76184 surface.update_clip_caps(view) 
    76185 File
    76186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76187 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76188 subdivision = settings.clipping_cap_subdivision) 
    76189 File
    76190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76191 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76192 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76193 File
    76194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76195 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76196 cm.set_geometry(varray, narray, tarray) 
    76197 File
    76198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76199 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76200 arv() 
    76201 File
    76202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76203 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76204 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76205 File
    76206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76207 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76208 s.vertex_colors = self.vertex_colors(report_stats) 
    76209 File
    76210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76211 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76212 values, outside = self.volume_values() 
    76213 File
    76214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76215 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76216 return self.offset_values(v, n, tf) 
    76217 File
    76218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76219 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76220 values, outside = self.vertex_values(v, xf) 
    76221 File
    76222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76223 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76224 out_of_bounds_list = True) 
    76225 File
    76226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76227 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76228 subregion, step) 
    76229 File
    76230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76231 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76232 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76233 File
    76234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76235 packages/chimerax/map/volume.py", line 1243, in
    76236 matrix_indices_to_xyz_transform 
    76237 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76238 File
    76239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76240 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76241 r = self.subregion(step, subregion) 
    76242 File
    76243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76244 packages/chimerax/map/volume.py", line 1558, in subregion 
    76245 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76246 AttributeError: 'NoneType' object has no attribute 'size' 
    76247  
    76248 AttributeError: 'NoneType' object has no attribute 'size' 
    76249  
    76250 File
    76251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76252 packages/chimerax/map/volume.py", line 1558, in subregion 
    76253 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76254  
    76255 See log for complete Python traceback. 
    76256  
    76257 Traceback (most recent call last): 
    76258 File
    76259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76260 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76261 drew = self.draw_new_frame() 
    76262 File
    76263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76264 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76265 surface.update_clip_caps(view) 
    76266 File
    76267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76268 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76269 subdivision = settings.clipping_cap_subdivision) 
    76270 File
    76271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76272 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76273 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76274 File
    76275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76276 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76277 cm.set_geometry(varray, narray, tarray) 
    76278 File
    76279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76280 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76281 arv() 
    76282 File
    76283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76284 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76285 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76286 File
    76287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76288 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76289 s.vertex_colors = self.vertex_colors(report_stats) 
    76290 File
    76291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76292 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76293 values, outside = self.volume_values() 
    76294 File
    76295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76296 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76297 return self.offset_values(v, n, tf) 
    76298 File
    76299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76300 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76301 values, outside = self.vertex_values(v, xf) 
    76302 File
    76303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76304 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76305 out_of_bounds_list = True) 
    76306 File
    76307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76308 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76309 subregion, step) 
    76310 File
    76311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76312 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76313 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76314 File
    76315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76316 packages/chimerax/map/volume.py", line 1243, in
    76317 matrix_indices_to_xyz_transform 
    76318 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76319 File
    76320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76321 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76322 r = self.subregion(step, subregion) 
    76323 File
    76324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76325 packages/chimerax/map/volume.py", line 1558, in subregion 
    76326 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76327 AttributeError: 'NoneType' object has no attribute 'size' 
    76328  
    76329 AttributeError: 'NoneType' object has no attribute 'size' 
    76330  
    76331 File
    76332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76333 packages/chimerax/map/volume.py", line 1558, in subregion 
    76334 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76335  
    76336 See log for complete Python traceback. 
    76337  
    76338 Traceback (most recent call last): 
    76339 File
    76340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76341 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76342 drew = self.draw_new_frame() 
    76343 File
    76344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76345 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76346 surface.update_clip_caps(view) 
    76347 File
    76348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76349 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76350 subdivision = settings.clipping_cap_subdivision) 
    76351 File
    76352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76353 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76354 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76355 File
    76356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76357 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76358 cm.set_geometry(varray, narray, tarray) 
    76359 File
    76360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76361 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76362 arv() 
    76363 File
    76364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76365 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76366 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76367 File
    76368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76369 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76370 s.vertex_colors = self.vertex_colors(report_stats) 
    76371 File
    76372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76373 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76374 values, outside = self.volume_values() 
    76375 File
    76376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76377 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76378 return self.offset_values(v, n, tf) 
    76379 File
    76380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76381 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76382 values, outside = self.vertex_values(v, xf) 
    76383 File
    76384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76385 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76386 out_of_bounds_list = True) 
    76387 File
    76388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76389 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76390 subregion, step) 
    76391 File
    76392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76393 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76394 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76395 File
    76396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76397 packages/chimerax/map/volume.py", line 1243, in
    76398 matrix_indices_to_xyz_transform 
    76399 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76400 File
    76401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76402 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76403 r = self.subregion(step, subregion) 
    76404 File
    76405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76406 packages/chimerax/map/volume.py", line 1558, in subregion 
    76407 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76408 AttributeError: 'NoneType' object has no attribute 'size' 
    76409  
    76410 AttributeError: 'NoneType' object has no attribute 'size' 
    76411  
    76412 File
    76413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76414 packages/chimerax/map/volume.py", line 1558, in subregion 
    76415 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76416  
    76417 See log for complete Python traceback. 
    76418  
    76419 Traceback (most recent call last): 
    76420 File
    76421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76422 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76423 drew = self.draw_new_frame() 
    76424 File
    76425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76426 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76427 surface.update_clip_caps(view) 
    76428 File
    76429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76430 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76431 subdivision = settings.clipping_cap_subdivision) 
    76432 File
    76433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76434 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76435 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76436 File
    76437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76438 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76439 cm.set_geometry(varray, narray, tarray) 
    76440 File
    76441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76442 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76443 arv() 
    76444 File
    76445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76446 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76447 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76448 File
    76449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76450 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76451 s.vertex_colors = self.vertex_colors(report_stats) 
    76452 File
    76453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76454 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76455 values, outside = self.volume_values() 
    76456 File
    76457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76458 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76459 return self.offset_values(v, n, tf) 
    76460 File
    76461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76462 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76463 values, outside = self.vertex_values(v, xf) 
    76464 File
    76465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76466 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76467 out_of_bounds_list = True) 
    76468 File
    76469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76470 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76471 subregion, step) 
    76472 File
    76473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76474 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76475 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76476 File
    76477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76478 packages/chimerax/map/volume.py", line 1243, in
    76479 matrix_indices_to_xyz_transform 
    76480 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76481 File
    76482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76483 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76484 r = self.subregion(step, subregion) 
    76485 File
    76486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76487 packages/chimerax/map/volume.py", line 1558, in subregion 
    76488 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76489 AttributeError: 'NoneType' object has no attribute 'size' 
    76490  
    76491 AttributeError: 'NoneType' object has no attribute 'size' 
    76492  
    76493 File
    76494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76495 packages/chimerax/map/volume.py", line 1558, in subregion 
    76496 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76497  
    76498 See log for complete Python traceback. 
    76499  
    76500 Traceback (most recent call last): 
    76501 File
    76502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76503 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76504 drew = self.draw_new_frame() 
    76505 File
    76506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76507 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76508 surface.update_clip_caps(view) 
    76509 File
    76510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76511 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76512 subdivision = settings.clipping_cap_subdivision) 
    76513 File
    76514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76515 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76516 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76517 File
    76518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76519 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76520 cm.set_geometry(varray, narray, tarray) 
    76521 File
    76522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76523 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76524 arv() 
    76525 File
    76526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76527 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76528 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76529 File
    76530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76531 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76532 s.vertex_colors = self.vertex_colors(report_stats) 
    76533 File
    76534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76535 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76536 values, outside = self.volume_values() 
    76537 File
    76538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76539 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76540 return self.offset_values(v, n, tf) 
    76541 File
    76542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76543 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76544 values, outside = self.vertex_values(v, xf) 
    76545 File
    76546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76547 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76548 out_of_bounds_list = True) 
    76549 File
    76550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76551 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76552 subregion, step) 
    76553 File
    76554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76555 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76556 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76557 File
    76558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76559 packages/chimerax/map/volume.py", line 1243, in
    76560 matrix_indices_to_xyz_transform 
    76561 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76562 File
    76563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76564 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76565 r = self.subregion(step, subregion) 
    76566 File
    76567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76568 packages/chimerax/map/volume.py", line 1558, in subregion 
    76569 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76570 AttributeError: 'NoneType' object has no attribute 'size' 
    76571  
    76572 AttributeError: 'NoneType' object has no attribute 'size' 
    76573  
    76574 File
    76575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76576 packages/chimerax/map/volume.py", line 1558, in subregion 
    76577 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76578  
    76579 See log for complete Python traceback. 
    76580  
    76581 Traceback (most recent call last): 
    76582 File
    76583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76584 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76585 drew = self.draw_new_frame() 
    76586 File
    76587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76588 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76589 surface.update_clip_caps(view) 
    76590 File
    76591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76592 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76593 subdivision = settings.clipping_cap_subdivision) 
    76594 File
    76595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76596 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76597 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76598 File
    76599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76600 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76601 cm.set_geometry(varray, narray, tarray) 
    76602 File
    76603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76604 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76605 arv() 
    76606 File
    76607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76608 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76609 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76610 File
    76611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76612 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76613 s.vertex_colors = self.vertex_colors(report_stats) 
    76614 File
    76615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76616 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76617 values, outside = self.volume_values() 
    76618 File
    76619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76620 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76621 return self.offset_values(v, n, tf) 
    76622 File
    76623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76624 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76625 values, outside = self.vertex_values(v, xf) 
    76626 File
    76627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76628 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76629 out_of_bounds_list = True) 
    76630 File
    76631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76632 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76633 subregion, step) 
    76634 File
    76635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76636 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76637 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76638 File
    76639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76640 packages/chimerax/map/volume.py", line 1243, in
    76641 matrix_indices_to_xyz_transform 
    76642 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76643 File
    76644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76645 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76646 r = self.subregion(step, subregion) 
    76647 File
    76648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76649 packages/chimerax/map/volume.py", line 1558, in subregion 
    76650 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76651 AttributeError: 'NoneType' object has no attribute 'size' 
    76652  
    76653 AttributeError: 'NoneType' object has no attribute 'size' 
    76654  
    76655 File
    76656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76657 packages/chimerax/map/volume.py", line 1558, in subregion 
    76658 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76659  
    76660 See log for complete Python traceback. 
    76661  
    76662 Traceback (most recent call last): 
    76663 File
    76664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76665 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76666 drew = self.draw_new_frame() 
    76667 File
    76668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76669 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76670 surface.update_clip_caps(view) 
    76671 File
    76672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76673 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76674 subdivision = settings.clipping_cap_subdivision) 
    76675 File
    76676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76677 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76678 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76679 File
    76680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76681 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76682 cm.set_geometry(varray, narray, tarray) 
    76683 File
    76684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76685 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76686 arv() 
    76687 File
    76688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76689 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76690 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76691 File
    76692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76693 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76694 s.vertex_colors = self.vertex_colors(report_stats) 
    76695 File
    76696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76697 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76698 values, outside = self.volume_values() 
    76699 File
    76700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76701 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76702 return self.offset_values(v, n, tf) 
    76703 File
    76704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76705 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76706 values, outside = self.vertex_values(v, xf) 
    76707 File
    76708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76709 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76710 out_of_bounds_list = True) 
    76711 File
    76712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76713 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76714 subregion, step) 
    76715 File
    76716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76717 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76718 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76719 File
    76720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76721 packages/chimerax/map/volume.py", line 1243, in
    76722 matrix_indices_to_xyz_transform 
    76723 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76724 File
    76725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76726 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76727 r = self.subregion(step, subregion) 
    76728 File
    76729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76730 packages/chimerax/map/volume.py", line 1558, in subregion 
    76731 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76732 AttributeError: 'NoneType' object has no attribute 'size' 
    76733  
    76734 AttributeError: 'NoneType' object has no attribute 'size' 
    76735  
    76736 File
    76737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76738 packages/chimerax/map/volume.py", line 1558, in subregion 
    76739 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76740  
    76741 See log for complete Python traceback. 
    76742  
    76743 Traceback (most recent call last): 
    76744 File
    76745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76746 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76747 drew = self.draw_new_frame() 
    76748 File
    76749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76750 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76751 surface.update_clip_caps(view) 
    76752 File
    76753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76754 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76755 subdivision = settings.clipping_cap_subdivision) 
    76756 File
    76757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76758 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76759 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76760 File
    76761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76762 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76763 cm.set_geometry(varray, narray, tarray) 
    76764 File
    76765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76766 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76767 arv() 
    76768 File
    76769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76770 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76771 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76772 File
    76773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76774 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76775 s.vertex_colors = self.vertex_colors(report_stats) 
    76776 File
    76777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76778 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76779 values, outside = self.volume_values() 
    76780 File
    76781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76782 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76783 return self.offset_values(v, n, tf) 
    76784 File
    76785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76786 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76787 values, outside = self.vertex_values(v, xf) 
    76788 File
    76789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76790 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76791 out_of_bounds_list = True) 
    76792 File
    76793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76794 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76795 subregion, step) 
    76796 File
    76797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76798 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76799 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76800 File
    76801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76802 packages/chimerax/map/volume.py", line 1243, in
    76803 matrix_indices_to_xyz_transform 
    76804 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76805 File
    76806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76807 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76808 r = self.subregion(step, subregion) 
    76809 File
    76810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76811 packages/chimerax/map/volume.py", line 1558, in subregion 
    76812 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76813 AttributeError: 'NoneType' object has no attribute 'size' 
    76814  
    76815 AttributeError: 'NoneType' object has no attribute 'size' 
    76816  
    76817 File
    76818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76819 packages/chimerax/map/volume.py", line 1558, in subregion 
    76820 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76821  
    76822 See log for complete Python traceback. 
    76823  
    76824 Traceback (most recent call last): 
    76825 File
    76826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76827 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76828 drew = self.draw_new_frame() 
    76829 File
    76830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76831 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76832 surface.update_clip_caps(view) 
    76833 File
    76834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76835 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76836 subdivision = settings.clipping_cap_subdivision) 
    76837 File
    76838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76839 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76840 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76841 File
    76842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76843 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76844 cm.set_geometry(varray, narray, tarray) 
    76845 File
    76846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76847 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76848 arv() 
    76849 File
    76850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76851 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76852 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76853 File
    76854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76855 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76856 s.vertex_colors = self.vertex_colors(report_stats) 
    76857 File
    76858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76859 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76860 values, outside = self.volume_values() 
    76861 File
    76862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76863 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76864 return self.offset_values(v, n, tf) 
    76865 File
    76866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76867 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76868 values, outside = self.vertex_values(v, xf) 
    76869 File
    76870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76871 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76872 out_of_bounds_list = True) 
    76873 File
    76874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76875 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76876 subregion, step) 
    76877 File
    76878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76879 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76880 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76881 File
    76882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76883 packages/chimerax/map/volume.py", line 1243, in
    76884 matrix_indices_to_xyz_transform 
    76885 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76886 File
    76887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76888 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76889 r = self.subregion(step, subregion) 
    76890 File
    76891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76892 packages/chimerax/map/volume.py", line 1558, in subregion 
    76893 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76894 AttributeError: 'NoneType' object has no attribute 'size' 
    76895  
    76896 AttributeError: 'NoneType' object has no attribute 'size' 
    76897  
    76898 File
    76899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76900 packages/chimerax/map/volume.py", line 1558, in subregion 
    76901 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76902  
    76903 See log for complete Python traceback. 
    76904  
    76905 Traceback (most recent call last): 
    76906 File
    76907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76908 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76909 drew = self.draw_new_frame() 
    76910 File
    76911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76912 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76913 surface.update_clip_caps(view) 
    76914 File
    76915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76916 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76917 subdivision = settings.clipping_cap_subdivision) 
    76918 File
    76919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76920 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    76921 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    76922 File
    76923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76924 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    76925 cm.set_geometry(varray, narray, tarray) 
    76926 File
    76927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76928 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    76929 arv() 
    76930 File
    76931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76932 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    76933 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    76934 File
    76935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76936 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    76937 s.vertex_colors = self.vertex_colors(report_stats) 
    76938 File
    76939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76940 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    76941 values, outside = self.volume_values() 
    76942 File
    76943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76944 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    76945 return self.offset_values(v, n, tf) 
    76946 File
    76947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76948 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    76949 values, outside = self.vertex_values(v, xf) 
    76950 File
    76951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76952 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    76953 out_of_bounds_list = True) 
    76954 File
    76955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76956 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    76957 subregion, step) 
    76958 File
    76959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76960 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    76961 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    76962 File
    76963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76964 packages/chimerax/map/volume.py", line 1243, in
    76965 matrix_indices_to_xyz_transform 
    76966 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    76967 File
    76968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76969 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    76970 r = self.subregion(step, subregion) 
    76971 File
    76972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76973 packages/chimerax/map/volume.py", line 1558, in subregion 
    76974 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76975 AttributeError: 'NoneType' object has no attribute 'size' 
    76976  
    76977 AttributeError: 'NoneType' object has no attribute 'size' 
    76978  
    76979 File
    76980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76981 packages/chimerax/map/volume.py", line 1558, in subregion 
    76982 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    76983  
    76984 See log for complete Python traceback. 
    76985  
    76986 Traceback (most recent call last): 
    76987 File
    76988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76989 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    76990 drew = self.draw_new_frame() 
    76991 File
    76992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76993 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    76994 surface.update_clip_caps(view) 
    76995 File
    76996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    76997 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    76998 subdivision = settings.clipping_cap_subdivision) 
    76999 File
    77000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77001 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77002 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77003 File
    77004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77005 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77006 cm.set_geometry(varray, narray, tarray) 
    77007 File
    77008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77009 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77010 arv() 
    77011 File
    77012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77013 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77014 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77015 File
    77016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77017 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77018 s.vertex_colors = self.vertex_colors(report_stats) 
    77019 File
    77020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77021 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77022 values, outside = self.volume_values() 
    77023 File
    77024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77025 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77026 return self.offset_values(v, n, tf) 
    77027 File
    77028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77029 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77030 values, outside = self.vertex_values(v, xf) 
    77031 File
    77032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77033 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77034 out_of_bounds_list = True) 
    77035 File
    77036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77037 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77038 subregion, step) 
    77039 File
    77040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77041 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77042 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77043 File
    77044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77045 packages/chimerax/map/volume.py", line 1243, in
    77046 matrix_indices_to_xyz_transform 
    77047 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77048 File
    77049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77050 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77051 r = self.subregion(step, subregion) 
    77052 File
    77053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77054 packages/chimerax/map/volume.py", line 1558, in subregion 
    77055 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77056 AttributeError: 'NoneType' object has no attribute 'size' 
    77057  
    77058 AttributeError: 'NoneType' object has no attribute 'size' 
    77059  
    77060 File
    77061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77062 packages/chimerax/map/volume.py", line 1558, in subregion 
    77063 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77064  
    77065 See log for complete Python traceback. 
    77066  
    77067 Traceback (most recent call last): 
    77068 File
    77069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77070 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77071 drew = self.draw_new_frame() 
    77072 File
    77073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77074 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77075 surface.update_clip_caps(view) 
    77076 File
    77077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77078 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77079 subdivision = settings.clipping_cap_subdivision) 
    77080 File
    77081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77082 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77083 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77084 File
    77085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77086 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77087 cm.set_geometry(varray, narray, tarray) 
    77088 File
    77089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77090 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77091 arv() 
    77092 File
    77093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77094 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77095 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77096 File
    77097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77098 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77099 s.vertex_colors = self.vertex_colors(report_stats) 
    77100 File
    77101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77102 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77103 values, outside = self.volume_values() 
    77104 File
    77105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77106 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77107 return self.offset_values(v, n, tf) 
    77108 File
    77109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77110 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77111 values, outside = self.vertex_values(v, xf) 
    77112 File
    77113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77114 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77115 out_of_bounds_list = True) 
    77116 File
    77117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77118 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77119 subregion, step) 
    77120 File
    77121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77122 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77123 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77124 File
    77125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77126 packages/chimerax/map/volume.py", line 1243, in
    77127 matrix_indices_to_xyz_transform 
    77128 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77129 File
    77130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77131 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77132 r = self.subregion(step, subregion) 
    77133 File
    77134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77135 packages/chimerax/map/volume.py", line 1558, in subregion 
    77136 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77137 AttributeError: 'NoneType' object has no attribute 'size' 
    77138  
    77139 AttributeError: 'NoneType' object has no attribute 'size' 
    77140  
    77141 File
    77142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77143 packages/chimerax/map/volume.py", line 1558, in subregion 
    77144 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77145  
    77146 See log for complete Python traceback. 
    77147  
    77148 Traceback (most recent call last): 
    77149 File
    77150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77151 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77152 drew = self.draw_new_frame() 
    77153 File
    77154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77155 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77156 surface.update_clip_caps(view) 
    77157 File
    77158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77159 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77160 subdivision = settings.clipping_cap_subdivision) 
    77161 File
    77162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77163 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77164 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77165 File
    77166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77167 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77168 cm.set_geometry(varray, narray, tarray) 
    77169 File
    77170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77171 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77172 arv() 
    77173 File
    77174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77175 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77176 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77177 File
    77178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77179 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77180 s.vertex_colors = self.vertex_colors(report_stats) 
    77181 File
    77182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77183 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77184 values, outside = self.volume_values() 
    77185 File
    77186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77187 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77188 return self.offset_values(v, n, tf) 
    77189 File
    77190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77191 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77192 values, outside = self.vertex_values(v, xf) 
    77193 File
    77194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77195 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77196 out_of_bounds_list = True) 
    77197 File
    77198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77199 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77200 subregion, step) 
    77201 File
    77202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77203 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77204 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77205 File
    77206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77207 packages/chimerax/map/volume.py", line 1243, in
    77208 matrix_indices_to_xyz_transform 
    77209 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77210 File
    77211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77212 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77213 r = self.subregion(step, subregion) 
    77214 File
    77215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77216 packages/chimerax/map/volume.py", line 1558, in subregion 
    77217 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77218 AttributeError: 'NoneType' object has no attribute 'size' 
    77219  
    77220 AttributeError: 'NoneType' object has no attribute 'size' 
    77221  
    77222 File
    77223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77224 packages/chimerax/map/volume.py", line 1558, in subregion 
    77225 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77226  
    77227 See log for complete Python traceback. 
    77228  
    77229 Traceback (most recent call last): 
    77230 File
    77231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77232 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77233 drew = self.draw_new_frame() 
    77234 File
    77235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77236 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77237 surface.update_clip_caps(view) 
    77238 File
    77239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77240 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77241 subdivision = settings.clipping_cap_subdivision) 
    77242 File
    77243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77244 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77245 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77246 File
    77247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77248 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77249 cm.set_geometry(varray, narray, tarray) 
    77250 File
    77251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77252 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77253 arv() 
    77254 File
    77255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77256 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77257 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77258 File
    77259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77260 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77261 s.vertex_colors = self.vertex_colors(report_stats) 
    77262 File
    77263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77264 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77265 values, outside = self.volume_values() 
    77266 File
    77267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77268 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77269 return self.offset_values(v, n, tf) 
    77270 File
    77271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77272 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77273 values, outside = self.vertex_values(v, xf) 
    77274 File
    77275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77276 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77277 out_of_bounds_list = True) 
    77278 File
    77279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77280 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77281 subregion, step) 
    77282 File
    77283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77284 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77285 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77286 File
    77287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77288 packages/chimerax/map/volume.py", line 1243, in
    77289 matrix_indices_to_xyz_transform 
    77290 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77291 File
    77292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77293 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77294 r = self.subregion(step, subregion) 
    77295 File
    77296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77297 packages/chimerax/map/volume.py", line 1558, in subregion 
    77298 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77299 AttributeError: 'NoneType' object has no attribute 'size' 
    77300  
    77301 AttributeError: 'NoneType' object has no attribute 'size' 
    77302  
    77303 File
    77304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77305 packages/chimerax/map/volume.py", line 1558, in subregion 
    77306 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77307  
    77308 See log for complete Python traceback. 
    77309  
    77310 Traceback (most recent call last): 
    77311 File
    77312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77313 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77314 drew = self.draw_new_frame() 
    77315 File
    77316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77317 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77318 surface.update_clip_caps(view) 
    77319 File
    77320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77321 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77322 subdivision = settings.clipping_cap_subdivision) 
    77323 File
    77324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77325 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77326 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77327 File
    77328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77329 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77330 cm.set_geometry(varray, narray, tarray) 
    77331 File
    77332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77333 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77334 arv() 
    77335 File
    77336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77337 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77338 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77339 File
    77340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77341 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77342 s.vertex_colors = self.vertex_colors(report_stats) 
    77343 File
    77344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77345 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77346 values, outside = self.volume_values() 
    77347 File
    77348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77349 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77350 return self.offset_values(v, n, tf) 
    77351 File
    77352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77353 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77354 values, outside = self.vertex_values(v, xf) 
    77355 File
    77356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77357 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77358 out_of_bounds_list = True) 
    77359 File
    77360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77361 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77362 subregion, step) 
    77363 File
    77364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77365 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77366 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77367 File
    77368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77369 packages/chimerax/map/volume.py", line 1243, in
    77370 matrix_indices_to_xyz_transform 
    77371 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77372 File
    77373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77374 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77375 r = self.subregion(step, subregion) 
    77376 File
    77377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77378 packages/chimerax/map/volume.py", line 1558, in subregion 
    77379 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77380 AttributeError: 'NoneType' object has no attribute 'size' 
    77381  
    77382 AttributeError: 'NoneType' object has no attribute 'size' 
    77383  
    77384 File
    77385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77386 packages/chimerax/map/volume.py", line 1558, in subregion 
    77387 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77388  
    77389 See log for complete Python traceback. 
    77390  
    77391 Traceback (most recent call last): 
    77392 File
    77393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77394 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77395 drew = self.draw_new_frame() 
    77396 File
    77397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77398 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77399 surface.update_clip_caps(view) 
    77400 File
    77401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77402 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77403 subdivision = settings.clipping_cap_subdivision) 
    77404 File
    77405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77406 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77407 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77408 File
    77409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77410 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77411 cm.set_geometry(varray, narray, tarray) 
    77412 File
    77413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77414 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77415 arv() 
    77416 File
    77417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77418 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77419 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77420 File
    77421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77422 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77423 s.vertex_colors = self.vertex_colors(report_stats) 
    77424 File
    77425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77426 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77427 values, outside = self.volume_values() 
    77428 File
    77429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77430 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77431 return self.offset_values(v, n, tf) 
    77432 File
    77433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77434 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77435 values, outside = self.vertex_values(v, xf) 
    77436 File
    77437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77438 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77439 out_of_bounds_list = True) 
    77440 File
    77441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77442 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77443 subregion, step) 
    77444 File
    77445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77446 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77447 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77448 File
    77449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77450 packages/chimerax/map/volume.py", line 1243, in
    77451 matrix_indices_to_xyz_transform 
    77452 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77453 File
    77454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77455 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77456 r = self.subregion(step, subregion) 
    77457 File
    77458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77459 packages/chimerax/map/volume.py", line 1558, in subregion 
    77460 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77461 AttributeError: 'NoneType' object has no attribute 'size' 
    77462  
    77463 AttributeError: 'NoneType' object has no attribute 'size' 
    77464  
    77465 File
    77466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77467 packages/chimerax/map/volume.py", line 1558, in subregion 
    77468 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77469  
    77470 See log for complete Python traceback. 
    77471  
    77472 Traceback (most recent call last): 
    77473 File
    77474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77475 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77476 drew = self.draw_new_frame() 
    77477 File
    77478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77479 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77480 surface.update_clip_caps(view) 
    77481 File
    77482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77483 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77484 subdivision = settings.clipping_cap_subdivision) 
    77485 File
    77486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77487 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77488 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77489 File
    77490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77491 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77492 cm.set_geometry(varray, narray, tarray) 
    77493 File
    77494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77495 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77496 arv() 
    77497 File
    77498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77499 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77500 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77501 File
    77502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77503 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77504 s.vertex_colors = self.vertex_colors(report_stats) 
    77505 File
    77506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77507 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77508 values, outside = self.volume_values() 
    77509 File
    77510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77511 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77512 return self.offset_values(v, n, tf) 
    77513 File
    77514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77515 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77516 values, outside = self.vertex_values(v, xf) 
    77517 File
    77518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77519 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77520 out_of_bounds_list = True) 
    77521 File
    77522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77523 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77524 subregion, step) 
    77525 File
    77526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77527 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77528 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77529 File
    77530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77531 packages/chimerax/map/volume.py", line 1243, in
    77532 matrix_indices_to_xyz_transform 
    77533 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77534 File
    77535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77536 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77537 r = self.subregion(step, subregion) 
    77538 File
    77539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77540 packages/chimerax/map/volume.py", line 1558, in subregion 
    77541 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77542 AttributeError: 'NoneType' object has no attribute 'size' 
    77543  
    77544 AttributeError: 'NoneType' object has no attribute 'size' 
    77545  
    77546 File
    77547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77548 packages/chimerax/map/volume.py", line 1558, in subregion 
    77549 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77550  
    77551 See log for complete Python traceback. 
    77552  
    77553 Traceback (most recent call last): 
    77554 File
    77555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77556 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77557 drew = self.draw_new_frame() 
    77558 File
    77559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77560 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77561 surface.update_clip_caps(view) 
    77562 File
    77563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77564 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77565 subdivision = settings.clipping_cap_subdivision) 
    77566 File
    77567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77568 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77569 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77570 File
    77571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77572 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77573 cm.set_geometry(varray, narray, tarray) 
    77574 File
    77575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77576 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77577 arv() 
    77578 File
    77579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77580 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77581 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77582 File
    77583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77584 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77585 s.vertex_colors = self.vertex_colors(report_stats) 
    77586 File
    77587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77588 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77589 values, outside = self.volume_values() 
    77590 File
    77591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77592 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77593 return self.offset_values(v, n, tf) 
    77594 File
    77595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77596 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77597 values, outside = self.vertex_values(v, xf) 
    77598 File
    77599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77600 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77601 out_of_bounds_list = True) 
    77602 File
    77603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77604 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77605 subregion, step) 
    77606 File
    77607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77608 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77609 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77610 File
    77611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77612 packages/chimerax/map/volume.py", line 1243, in
    77613 matrix_indices_to_xyz_transform 
    77614 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77615 File
    77616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77617 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77618 r = self.subregion(step, subregion) 
    77619 File
    77620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77621 packages/chimerax/map/volume.py", line 1558, in subregion 
    77622 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77623 AttributeError: 'NoneType' object has no attribute 'size' 
    77624  
    77625 AttributeError: 'NoneType' object has no attribute 'size' 
    77626  
    77627 File
    77628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77629 packages/chimerax/map/volume.py", line 1558, in subregion 
    77630 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77631  
    77632 See log for complete Python traceback. 
    77633  
    77634 Traceback (most recent call last): 
    77635 File
    77636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77637 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77638 drew = self.draw_new_frame() 
    77639 File
    77640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77641 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77642 surface.update_clip_caps(view) 
    77643 File
    77644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77645 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77646 subdivision = settings.clipping_cap_subdivision) 
    77647 File
    77648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77649 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77650 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77651 File
    77652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77653 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77654 cm.set_geometry(varray, narray, tarray) 
    77655 File
    77656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77657 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77658 arv() 
    77659 File
    77660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77661 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77662 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77663 File
    77664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77665 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77666 s.vertex_colors = self.vertex_colors(report_stats) 
    77667 File
    77668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77669 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77670 values, outside = self.volume_values() 
    77671 File
    77672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77673 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77674 return self.offset_values(v, n, tf) 
    77675 File
    77676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77677 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77678 values, outside = self.vertex_values(v, xf) 
    77679 File
    77680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77681 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77682 out_of_bounds_list = True) 
    77683 File
    77684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77685 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77686 subregion, step) 
    77687 File
    77688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77689 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77690 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77691 File
    77692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77693 packages/chimerax/map/volume.py", line 1243, in
    77694 matrix_indices_to_xyz_transform 
    77695 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77696 File
    77697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77698 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77699 r = self.subregion(step, subregion) 
    77700 File
    77701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77702 packages/chimerax/map/volume.py", line 1558, in subregion 
    77703 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77704 AttributeError: 'NoneType' object has no attribute 'size' 
    77705  
    77706 AttributeError: 'NoneType' object has no attribute 'size' 
    77707  
    77708 File
    77709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77710 packages/chimerax/map/volume.py", line 1558, in subregion 
    77711 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77712  
    77713 See log for complete Python traceback. 
    77714  
    77715 Traceback (most recent call last): 
    77716 File
    77717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77718 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77719 drew = self.draw_new_frame() 
    77720 File
    77721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77722 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77723 surface.update_clip_caps(view) 
    77724 File
    77725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77726 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77727 subdivision = settings.clipping_cap_subdivision) 
    77728 File
    77729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77730 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77731 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77732 File
    77733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77734 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77735 cm.set_geometry(varray, narray, tarray) 
    77736 File
    77737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77738 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77739 arv() 
    77740 File
    77741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77742 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77743 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77744 File
    77745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77746 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77747 s.vertex_colors = self.vertex_colors(report_stats) 
    77748 File
    77749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77750 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77751 values, outside = self.volume_values() 
    77752 File
    77753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77754 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77755 return self.offset_values(v, n, tf) 
    77756 File
    77757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77758 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77759 values, outside = self.vertex_values(v, xf) 
    77760 File
    77761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77762 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77763 out_of_bounds_list = True) 
    77764 File
    77765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77766 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77767 subregion, step) 
    77768 File
    77769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77770 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77771 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77772 File
    77773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77774 packages/chimerax/map/volume.py", line 1243, in
    77775 matrix_indices_to_xyz_transform 
    77776 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77777 File
    77778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77779 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77780 r = self.subregion(step, subregion) 
    77781 File
    77782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77783 packages/chimerax/map/volume.py", line 1558, in subregion 
    77784 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77785 AttributeError: 'NoneType' object has no attribute 'size' 
    77786  
    77787 AttributeError: 'NoneType' object has no attribute 'size' 
    77788  
    77789 File
    77790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77791 packages/chimerax/map/volume.py", line 1558, in subregion 
    77792 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77793  
    77794 See log for complete Python traceback. 
    77795  
    77796 Traceback (most recent call last): 
    77797 File
    77798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77799 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77800 drew = self.draw_new_frame() 
    77801 File
    77802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77803 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77804 surface.update_clip_caps(view) 
    77805 File
    77806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77807 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77808 subdivision = settings.clipping_cap_subdivision) 
    77809 File
    77810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77811 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77812 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77813 File
    77814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77815 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77816 cm.set_geometry(varray, narray, tarray) 
    77817 File
    77818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77819 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77820 arv() 
    77821 File
    77822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77823 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77824 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77825 File
    77826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77827 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77828 s.vertex_colors = self.vertex_colors(report_stats) 
    77829 File
    77830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77831 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77832 values, outside = self.volume_values() 
    77833 File
    77834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77835 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77836 return self.offset_values(v, n, tf) 
    77837 File
    77838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77839 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77840 values, outside = self.vertex_values(v, xf) 
    77841 File
    77842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77843 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77844 out_of_bounds_list = True) 
    77845 File
    77846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77847 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77848 subregion, step) 
    77849 File
    77850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77851 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77852 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77853 File
    77854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77855 packages/chimerax/map/volume.py", line 1243, in
    77856 matrix_indices_to_xyz_transform 
    77857 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77858 File
    77859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77860 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77861 r = self.subregion(step, subregion) 
    77862 File
    77863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77864 packages/chimerax/map/volume.py", line 1558, in subregion 
    77865 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77866 AttributeError: 'NoneType' object has no attribute 'size' 
    77867  
    77868 AttributeError: 'NoneType' object has no attribute 'size' 
    77869  
    77870 File
    77871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77872 packages/chimerax/map/volume.py", line 1558, in subregion 
    77873 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77874  
    77875 See log for complete Python traceback. 
    77876  
    77877 Traceback (most recent call last): 
    77878 File
    77879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77880 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77881 drew = self.draw_new_frame() 
    77882 File
    77883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77884 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77885 surface.update_clip_caps(view) 
    77886 File
    77887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77888 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77889 subdivision = settings.clipping_cap_subdivision) 
    77890 File
    77891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77892 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77893 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77894 File
    77895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77896 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77897 cm.set_geometry(varray, narray, tarray) 
    77898 File
    77899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77900 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77901 arv() 
    77902 File
    77903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77904 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77905 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77906 File
    77907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77908 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77909 s.vertex_colors = self.vertex_colors(report_stats) 
    77910 File
    77911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77912 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77913 values, outside = self.volume_values() 
    77914 File
    77915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77916 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77917 return self.offset_values(v, n, tf) 
    77918 File
    77919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77920 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    77921 values, outside = self.vertex_values(v, xf) 
    77922 File
    77923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77924 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    77925 out_of_bounds_list = True) 
    77926 File
    77927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77928 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    77929 subregion, step) 
    77930 File
    77931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77932 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    77933 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    77934 File
    77935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77936 packages/chimerax/map/volume.py", line 1243, in
    77937 matrix_indices_to_xyz_transform 
    77938 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    77939 File
    77940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77941 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    77942 r = self.subregion(step, subregion) 
    77943 File
    77944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77945 packages/chimerax/map/volume.py", line 1558, in subregion 
    77946 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77947 AttributeError: 'NoneType' object has no attribute 'size' 
    77948  
    77949 AttributeError: 'NoneType' object has no attribute 'size' 
    77950  
    77951 File
    77952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77953 packages/chimerax/map/volume.py", line 1558, in subregion 
    77954 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    77955  
    77956 See log for complete Python traceback. 
    77957  
    77958 Traceback (most recent call last): 
    77959 File
    77960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77961 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    77962 drew = self.draw_new_frame() 
    77963 File
    77964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77965 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    77966 surface.update_clip_caps(view) 
    77967 File
    77968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77969 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    77970 subdivision = settings.clipping_cap_subdivision) 
    77971 File
    77972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77973 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    77974 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    77975 File
    77976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77977 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    77978 cm.set_geometry(varray, narray, tarray) 
    77979 File
    77980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77981 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    77982 arv() 
    77983 File
    77984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77985 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    77986 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    77987 File
    77988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77989 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    77990 s.vertex_colors = self.vertex_colors(report_stats) 
    77991 File
    77992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77993 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    77994 values, outside = self.volume_values() 
    77995 File
    77996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    77997 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    77998 return self.offset_values(v, n, tf) 
    77999 File
    78000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78001 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78002 values, outside = self.vertex_values(v, xf) 
    78003 File
    78004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78005 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78006 out_of_bounds_list = True) 
    78007 File
    78008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78009 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78010 subregion, step) 
    78011 File
    78012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78013 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78014 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78015 File
    78016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78017 packages/chimerax/map/volume.py", line 1243, in
    78018 matrix_indices_to_xyz_transform 
    78019 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78020 File
    78021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78022 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78023 r = self.subregion(step, subregion) 
    78024 File
    78025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78026 packages/chimerax/map/volume.py", line 1558, in subregion 
    78027 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78028 AttributeError: 'NoneType' object has no attribute 'size' 
    78029  
    78030 AttributeError: 'NoneType' object has no attribute 'size' 
    78031  
    78032 File
    78033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78034 packages/chimerax/map/volume.py", line 1558, in subregion 
    78035 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78036  
    78037 See log for complete Python traceback. 
    78038  
    78039 Traceback (most recent call last): 
    78040 File
    78041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78042 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78043 drew = self.draw_new_frame() 
    78044 File
    78045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78046 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78047 surface.update_clip_caps(view) 
    78048 File
    78049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78050 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78051 subdivision = settings.clipping_cap_subdivision) 
    78052 File
    78053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78054 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78055 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78056 File
    78057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78058 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78059 cm.set_geometry(varray, narray, tarray) 
    78060 File
    78061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78062 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78063 arv() 
    78064 File
    78065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78066 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78067 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78068 File
    78069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78070 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78071 s.vertex_colors = self.vertex_colors(report_stats) 
    78072 File
    78073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78074 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78075 values, outside = self.volume_values() 
    78076 File
    78077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78078 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78079 return self.offset_values(v, n, tf) 
    78080 File
    78081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78082 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78083 values, outside = self.vertex_values(v, xf) 
    78084 File
    78085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78086 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78087 out_of_bounds_list = True) 
    78088 File
    78089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78090 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78091 subregion, step) 
    78092 File
    78093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78094 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78095 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78096 File
    78097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78098 packages/chimerax/map/volume.py", line 1243, in
    78099 matrix_indices_to_xyz_transform 
    78100 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78101 File
    78102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78103 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78104 r = self.subregion(step, subregion) 
    78105 File
    78106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78107 packages/chimerax/map/volume.py", line 1558, in subregion 
    78108 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78109 AttributeError: 'NoneType' object has no attribute 'size' 
    78110  
    78111 AttributeError: 'NoneType' object has no attribute 'size' 
    78112  
    78113 File
    78114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78115 packages/chimerax/map/volume.py", line 1558, in subregion 
    78116 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78117  
    78118 See log for complete Python traceback. 
    78119  
    78120 Traceback (most recent call last): 
    78121 File
    78122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78123 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78124 drew = self.draw_new_frame() 
    78125 File
    78126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78127 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78128 surface.update_clip_caps(view) 
    78129 File
    78130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78131 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78132 subdivision = settings.clipping_cap_subdivision) 
    78133 File
    78134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78135 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78136 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78137 File
    78138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78139 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78140 cm.set_geometry(varray, narray, tarray) 
    78141 File
    78142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78143 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78144 arv() 
    78145 File
    78146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78147 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78148 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78149 File
    78150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78151 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78152 s.vertex_colors = self.vertex_colors(report_stats) 
    78153 File
    78154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78155 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78156 values, outside = self.volume_values() 
    78157 File
    78158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78159 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78160 return self.offset_values(v, n, tf) 
    78161 File
    78162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78163 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78164 values, outside = self.vertex_values(v, xf) 
    78165 File
    78166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78167 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78168 out_of_bounds_list = True) 
    78169 File
    78170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78171 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78172 subregion, step) 
    78173 File
    78174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78175 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78176 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78177 File
    78178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78179 packages/chimerax/map/volume.py", line 1243, in
    78180 matrix_indices_to_xyz_transform 
    78181 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78182 File
    78183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78184 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78185 r = self.subregion(step, subregion) 
    78186 File
    78187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78188 packages/chimerax/map/volume.py", line 1558, in subregion 
    78189 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78190 AttributeError: 'NoneType' object has no attribute 'size' 
    78191  
    78192 AttributeError: 'NoneType' object has no attribute 'size' 
    78193  
    78194 File
    78195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78196 packages/chimerax/map/volume.py", line 1558, in subregion 
    78197 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78198  
    78199 See log for complete Python traceback. 
    78200  
    78201 Traceback (most recent call last): 
    78202 File
    78203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78204 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78205 drew = self.draw_new_frame() 
    78206 File
    78207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78208 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78209 surface.update_clip_caps(view) 
    78210 File
    78211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78212 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78213 subdivision = settings.clipping_cap_subdivision) 
    78214 File
    78215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78216 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78217 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78218 File
    78219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78220 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78221 cm.set_geometry(varray, narray, tarray) 
    78222 File
    78223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78224 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78225 arv() 
    78226 File
    78227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78228 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78229 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78230 File
    78231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78232 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78233 s.vertex_colors = self.vertex_colors(report_stats) 
    78234 File
    78235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78236 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78237 values, outside = self.volume_values() 
    78238 File
    78239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78240 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78241 return self.offset_values(v, n, tf) 
    78242 File
    78243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78244 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78245 values, outside = self.vertex_values(v, xf) 
    78246 File
    78247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78248 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78249 out_of_bounds_list = True) 
    78250 File
    78251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78252 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78253 subregion, step) 
    78254 File
    78255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78256 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78257 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78258 File
    78259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78260 packages/chimerax/map/volume.py", line 1243, in
    78261 matrix_indices_to_xyz_transform 
    78262 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78263 File
    78264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78265 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78266 r = self.subregion(step, subregion) 
    78267 File
    78268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78269 packages/chimerax/map/volume.py", line 1558, in subregion 
    78270 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78271 AttributeError: 'NoneType' object has no attribute 'size' 
    78272  
    78273 AttributeError: 'NoneType' object has no attribute 'size' 
    78274  
    78275 File
    78276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78277 packages/chimerax/map/volume.py", line 1558, in subregion 
    78278 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78279  
    78280 See log for complete Python traceback. 
    78281  
    78282 Traceback (most recent call last): 
    78283 File
    78284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78285 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78286 drew = self.draw_new_frame() 
    78287 File
    78288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78289 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78290 surface.update_clip_caps(view) 
    78291 File
    78292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78293 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78294 subdivision = settings.clipping_cap_subdivision) 
    78295 File
    78296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78297 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78298 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78299 File
    78300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78301 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78302 cm.set_geometry(varray, narray, tarray) 
    78303 File
    78304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78305 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78306 arv() 
    78307 File
    78308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78309 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78310 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78311 File
    78312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78313 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78314 s.vertex_colors = self.vertex_colors(report_stats) 
    78315 File
    78316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78317 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78318 values, outside = self.volume_values() 
    78319 File
    78320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78321 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78322 return self.offset_values(v, n, tf) 
    78323 File
    78324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78325 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78326 values, outside = self.vertex_values(v, xf) 
    78327 File
    78328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78329 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78330 out_of_bounds_list = True) 
    78331 File
    78332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78333 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78334 subregion, step) 
    78335 File
    78336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78337 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78338 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78339 File
    78340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78341 packages/chimerax/map/volume.py", line 1243, in
    78342 matrix_indices_to_xyz_transform 
    78343 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78344 File
    78345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78346 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78347 r = self.subregion(step, subregion) 
    78348 File
    78349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78350 packages/chimerax/map/volume.py", line 1558, in subregion 
    78351 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78352 AttributeError: 'NoneType' object has no attribute 'size' 
    78353  
    78354 AttributeError: 'NoneType' object has no attribute 'size' 
    78355  
    78356 File
    78357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78358 packages/chimerax/map/volume.py", line 1558, in subregion 
    78359 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78360  
    78361 See log for complete Python traceback. 
    78362  
    78363 Traceback (most recent call last): 
    78364 File
    78365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78366 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78367 drew = self.draw_new_frame() 
    78368 File
    78369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78370 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78371 surface.update_clip_caps(view) 
    78372 File
    78373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78374 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78375 subdivision = settings.clipping_cap_subdivision) 
    78376 File
    78377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78378 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78379 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78380 File
    78381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78382 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78383 cm.set_geometry(varray, narray, tarray) 
    78384 File
    78385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78386 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78387 arv() 
    78388 File
    78389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78390 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78391 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78392 File
    78393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78394 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78395 s.vertex_colors = self.vertex_colors(report_stats) 
    78396 File
    78397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78398 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78399 values, outside = self.volume_values() 
    78400 File
    78401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78402 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78403 return self.offset_values(v, n, tf) 
    78404 File
    78405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78406 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78407 values, outside = self.vertex_values(v, xf) 
    78408 File
    78409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78410 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78411 out_of_bounds_list = True) 
    78412 File
    78413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78414 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78415 subregion, step) 
    78416 File
    78417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78418 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78419 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78420 File
    78421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78422 packages/chimerax/map/volume.py", line 1243, in
    78423 matrix_indices_to_xyz_transform 
    78424 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78425 File
    78426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78427 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78428 r = self.subregion(step, subregion) 
    78429 File
    78430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78431 packages/chimerax/map/volume.py", line 1558, in subregion 
    78432 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78433 AttributeError: 'NoneType' object has no attribute 'size' 
    78434  
    78435 AttributeError: 'NoneType' object has no attribute 'size' 
    78436  
    78437 File
    78438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78439 packages/chimerax/map/volume.py", line 1558, in subregion 
    78440 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78441  
    78442 See log for complete Python traceback. 
    78443  
    78444 Traceback (most recent call last): 
    78445 File
    78446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78447 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78448 drew = self.draw_new_frame() 
    78449 File
    78450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78451 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78452 surface.update_clip_caps(view) 
    78453 File
    78454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78455 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78456 subdivision = settings.clipping_cap_subdivision) 
    78457 File
    78458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78459 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78460 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78461 File
    78462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78463 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78464 cm.set_geometry(varray, narray, tarray) 
    78465 File
    78466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78467 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78468 arv() 
    78469 File
    78470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78471 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78472 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78473 File
    78474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78475 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78476 s.vertex_colors = self.vertex_colors(report_stats) 
    78477 File
    78478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78479 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78480 values, outside = self.volume_values() 
    78481 File
    78482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78483 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78484 return self.offset_values(v, n, tf) 
    78485 File
    78486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78487 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78488 values, outside = self.vertex_values(v, xf) 
    78489 File
    78490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78491 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78492 out_of_bounds_list = True) 
    78493 File
    78494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78495 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78496 subregion, step) 
    78497 File
    78498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78499 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78500 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78501 File
    78502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78503 packages/chimerax/map/volume.py", line 1243, in
    78504 matrix_indices_to_xyz_transform 
    78505 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78506 File
    78507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78508 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78509 r = self.subregion(step, subregion) 
    78510 File
    78511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78512 packages/chimerax/map/volume.py", line 1558, in subregion 
    78513 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78514 AttributeError: 'NoneType' object has no attribute 'size' 
    78515  
    78516 AttributeError: 'NoneType' object has no attribute 'size' 
    78517  
    78518 File
    78519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78520 packages/chimerax/map/volume.py", line 1558, in subregion 
    78521 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78522  
    78523 See log for complete Python traceback. 
    78524  
    78525 Traceback (most recent call last): 
    78526 File
    78527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78528 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78529 drew = self.draw_new_frame() 
    78530 File
    78531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78532 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78533 surface.update_clip_caps(view) 
    78534 File
    78535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78536 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78537 subdivision = settings.clipping_cap_subdivision) 
    78538 File
    78539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78540 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78541 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78542 File
    78543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78544 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78545 cm.set_geometry(varray, narray, tarray) 
    78546 File
    78547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78548 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78549 arv() 
    78550 File
    78551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78552 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78553 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78554 File
    78555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78556 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78557 s.vertex_colors = self.vertex_colors(report_stats) 
    78558 File
    78559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78560 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78561 values, outside = self.volume_values() 
    78562 File
    78563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78564 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78565 return self.offset_values(v, n, tf) 
    78566 File
    78567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78568 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78569 values, outside = self.vertex_values(v, xf) 
    78570 File
    78571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78572 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78573 out_of_bounds_list = True) 
    78574 File
    78575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78576 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78577 subregion, step) 
    78578 File
    78579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78580 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78581 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78582 File
    78583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78584 packages/chimerax/map/volume.py", line 1243, in
    78585 matrix_indices_to_xyz_transform 
    78586 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78587 File
    78588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78589 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78590 r = self.subregion(step, subregion) 
    78591 File
    78592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78593 packages/chimerax/map/volume.py", line 1558, in subregion 
    78594 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78595 AttributeError: 'NoneType' object has no attribute 'size' 
    78596  
    78597 AttributeError: 'NoneType' object has no attribute 'size' 
    78598  
    78599 File
    78600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78601 packages/chimerax/map/volume.py", line 1558, in subregion 
    78602 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78603  
    78604 See log for complete Python traceback. 
    78605  
    78606 Traceback (most recent call last): 
    78607 File
    78608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78609 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78610 drew = self.draw_new_frame() 
    78611 File
    78612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78613 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78614 surface.update_clip_caps(view) 
    78615 File
    78616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78617 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78618 subdivision = settings.clipping_cap_subdivision) 
    78619 File
    78620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78621 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78622 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78623 File
    78624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78625 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78626 cm.set_geometry(varray, narray, tarray) 
    78627 File
    78628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78629 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78630 arv() 
    78631 File
    78632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78633 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78634 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78635 File
    78636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78637 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78638 s.vertex_colors = self.vertex_colors(report_stats) 
    78639 File
    78640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78641 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78642 values, outside = self.volume_values() 
    78643 File
    78644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78645 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78646 return self.offset_values(v, n, tf) 
    78647 File
    78648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78649 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78650 values, outside = self.vertex_values(v, xf) 
    78651 File
    78652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78653 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78654 out_of_bounds_list = True) 
    78655 File
    78656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78657 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78658 subregion, step) 
    78659 File
    78660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78661 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78662 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78663 File
    78664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78665 packages/chimerax/map/volume.py", line 1243, in
    78666 matrix_indices_to_xyz_transform 
    78667 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78668 File
    78669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78670 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78671 r = self.subregion(step, subregion) 
    78672 File
    78673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78674 packages/chimerax/map/volume.py", line 1558, in subregion 
    78675 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78676 AttributeError: 'NoneType' object has no attribute 'size' 
    78677  
    78678 AttributeError: 'NoneType' object has no attribute 'size' 
    78679  
    78680 File
    78681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78682 packages/chimerax/map/volume.py", line 1558, in subregion 
    78683 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78684  
    78685 See log for complete Python traceback. 
    78686  
    78687 Traceback (most recent call last): 
    78688 File
    78689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78690 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78691 drew = self.draw_new_frame() 
    78692 File
    78693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78694 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78695 surface.update_clip_caps(view) 
    78696 File
    78697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78698 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78699 subdivision = settings.clipping_cap_subdivision) 
    78700 File
    78701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78702 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78703 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78704 File
    78705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78706 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78707 cm.set_geometry(varray, narray, tarray) 
    78708 File
    78709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78710 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78711 arv() 
    78712 File
    78713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78714 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78715 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78716 File
    78717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78718 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78719 s.vertex_colors = self.vertex_colors(report_stats) 
    78720 File
    78721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78722 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78723 values, outside = self.volume_values() 
    78724 File
    78725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78726 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78727 return self.offset_values(v, n, tf) 
    78728 File
    78729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78730 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78731 values, outside = self.vertex_values(v, xf) 
    78732 File
    78733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78734 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78735 out_of_bounds_list = True) 
    78736 File
    78737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78738 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78739 subregion, step) 
    78740 File
    78741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78742 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78743 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78744 File
    78745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78746 packages/chimerax/map/volume.py", line 1243, in
    78747 matrix_indices_to_xyz_transform 
    78748 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78749 File
    78750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78751 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78752 r = self.subregion(step, subregion) 
    78753 File
    78754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78755 packages/chimerax/map/volume.py", line 1558, in subregion 
    78756 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78757 AttributeError: 'NoneType' object has no attribute 'size' 
    78758  
    78759 AttributeError: 'NoneType' object has no attribute 'size' 
    78760  
    78761 File
    78762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78763 packages/chimerax/map/volume.py", line 1558, in subregion 
    78764 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78765  
    78766 See log for complete Python traceback. 
    78767  
    78768 Traceback (most recent call last): 
    78769 File
    78770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78771 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78772 drew = self.draw_new_frame() 
    78773 File
    78774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78775 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78776 surface.update_clip_caps(view) 
    78777 File
    78778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78779 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78780 subdivision = settings.clipping_cap_subdivision) 
    78781 File
    78782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78783 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78784 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78785 File
    78786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78787 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78788 cm.set_geometry(varray, narray, tarray) 
    78789 File
    78790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78791 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78792 arv() 
    78793 File
    78794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78795 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78796 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78797 File
    78798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78799 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78800 s.vertex_colors = self.vertex_colors(report_stats) 
    78801 File
    78802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78803 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78804 values, outside = self.volume_values() 
    78805 File
    78806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78807 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78808 return self.offset_values(v, n, tf) 
    78809 File
    78810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78811 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78812 values, outside = self.vertex_values(v, xf) 
    78813 File
    78814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78815 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78816 out_of_bounds_list = True) 
    78817 File
    78818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78819 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78820 subregion, step) 
    78821 File
    78822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78823 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78824 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78825 File
    78826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78827 packages/chimerax/map/volume.py", line 1243, in
    78828 matrix_indices_to_xyz_transform 
    78829 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78830 File
    78831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78832 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78833 r = self.subregion(step, subregion) 
    78834 File
    78835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78836 packages/chimerax/map/volume.py", line 1558, in subregion 
    78837 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78838 AttributeError: 'NoneType' object has no attribute 'size' 
    78839  
    78840 AttributeError: 'NoneType' object has no attribute 'size' 
    78841  
    78842 File
    78843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78844 packages/chimerax/map/volume.py", line 1558, in subregion 
    78845 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78846  
    78847 See log for complete Python traceback. 
    78848  
    78849 Traceback (most recent call last): 
    78850 File
    78851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78852 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78853 drew = self.draw_new_frame() 
    78854 File
    78855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78856 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78857 surface.update_clip_caps(view) 
    78858 File
    78859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78860 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78861 subdivision = settings.clipping_cap_subdivision) 
    78862 File
    78863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78864 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78865 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78866 File
    78867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78868 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78869 cm.set_geometry(varray, narray, tarray) 
    78870 File
    78871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78872 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78873 arv() 
    78874 File
    78875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78876 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78877 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78878 File
    78879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78880 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78881 s.vertex_colors = self.vertex_colors(report_stats) 
    78882 File
    78883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78884 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78885 values, outside = self.volume_values() 
    78886 File
    78887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78888 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78889 return self.offset_values(v, n, tf) 
    78890 File
    78891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78892 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78893 values, outside = self.vertex_values(v, xf) 
    78894 File
    78895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78896 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78897 out_of_bounds_list = True) 
    78898 File
    78899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78900 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78901 subregion, step) 
    78902 File
    78903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78904 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78905 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78906 File
    78907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78908 packages/chimerax/map/volume.py", line 1243, in
    78909 matrix_indices_to_xyz_transform 
    78910 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78911 File
    78912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78913 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78914 r = self.subregion(step, subregion) 
    78915 File
    78916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78917 packages/chimerax/map/volume.py", line 1558, in subregion 
    78918 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78919 AttributeError: 'NoneType' object has no attribute 'size' 
    78920  
    78921 AttributeError: 'NoneType' object has no attribute 'size' 
    78922  
    78923 File
    78924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78925 packages/chimerax/map/volume.py", line 1558, in subregion 
    78926 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    78927  
    78928 See log for complete Python traceback. 
    78929  
    78930 Traceback (most recent call last): 
    78931 File
    78932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78933 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    78934 drew = self.draw_new_frame() 
    78935 File
    78936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78937 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    78938 surface.update_clip_caps(view) 
    78939 File
    78940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78941 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    78942 subdivision = settings.clipping_cap_subdivision) 
    78943 File
    78944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78945 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    78946 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    78947 File
    78948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78949 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    78950 cm.set_geometry(varray, narray, tarray) 
    78951 File
    78952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78953 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    78954 arv() 
    78955 File
    78956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78957 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    78958 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    78959 File
    78960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78961 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    78962 s.vertex_colors = self.vertex_colors(report_stats) 
    78963 File
    78964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78965 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    78966 values, outside = self.volume_values() 
    78967 File
    78968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78969 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    78970 return self.offset_values(v, n, tf) 
    78971 File
    78972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78973 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    78974 values, outside = self.vertex_values(v, xf) 
    78975 File
    78976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78977 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    78978 out_of_bounds_list = True) 
    78979 File
    78980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78981 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    78982 subregion, step) 
    78983 File
    78984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78985 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    78986 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    78987 File
    78988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78989 packages/chimerax/map/volume.py", line 1243, in
    78990 matrix_indices_to_xyz_transform 
    78991 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    78992 File
    78993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78994 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    78995 r = self.subregion(step, subregion) 
    78996 File
    78997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    78998 packages/chimerax/map/volume.py", line 1558, in subregion 
    78999 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79000 AttributeError: 'NoneType' object has no attribute 'size' 
    79001  
    79002 AttributeError: 'NoneType' object has no attribute 'size' 
    79003  
    79004 File
    79005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79006 packages/chimerax/map/volume.py", line 1558, in subregion 
    79007 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79008  
    79009 See log for complete Python traceback. 
    79010  
    79011 Traceback (most recent call last): 
    79012 File
    79013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79014 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79015 drew = self.draw_new_frame() 
    79016 File
    79017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79018 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79019 surface.update_clip_caps(view) 
    79020 File
    79021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79022 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79023 subdivision = settings.clipping_cap_subdivision) 
    79024 File
    79025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79026 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79027 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79028 File
    79029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79030 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79031 cm.set_geometry(varray, narray, tarray) 
    79032 File
    79033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79034 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79035 arv() 
    79036 File
    79037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79038 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79039 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79040 File
    79041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79042 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79043 s.vertex_colors = self.vertex_colors(report_stats) 
    79044 File
    79045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79046 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79047 values, outside = self.volume_values() 
    79048 File
    79049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79050 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79051 return self.offset_values(v, n, tf) 
    79052 File
    79053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79054 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79055 values, outside = self.vertex_values(v, xf) 
    79056 File
    79057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79058 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79059 out_of_bounds_list = True) 
    79060 File
    79061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79062 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79063 subregion, step) 
    79064 File
    79065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79066 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79067 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79068 File
    79069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79070 packages/chimerax/map/volume.py", line 1243, in
    79071 matrix_indices_to_xyz_transform 
    79072 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79073 File
    79074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79075 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79076 r = self.subregion(step, subregion) 
    79077 File
    79078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79079 packages/chimerax/map/volume.py", line 1558, in subregion 
    79080 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79081 AttributeError: 'NoneType' object has no attribute 'size' 
    79082  
    79083 AttributeError: 'NoneType' object has no attribute 'size' 
    79084  
    79085 File
    79086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79087 packages/chimerax/map/volume.py", line 1558, in subregion 
    79088 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79089  
    79090 See log for complete Python traceback. 
    79091  
    79092 Traceback (most recent call last): 
    79093 File
    79094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79095 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79096 drew = self.draw_new_frame() 
    79097 File
    79098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79099 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79100 surface.update_clip_caps(view) 
    79101 File
    79102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79103 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79104 subdivision = settings.clipping_cap_subdivision) 
    79105 File
    79106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79107 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79108 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79109 File
    79110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79111 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79112 cm.set_geometry(varray, narray, tarray) 
    79113 File
    79114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79115 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79116 arv() 
    79117 File
    79118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79119 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79120 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79121 File
    79122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79123 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79124 s.vertex_colors = self.vertex_colors(report_stats) 
    79125 File
    79126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79127 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79128 values, outside = self.volume_values() 
    79129 File
    79130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79131 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79132 return self.offset_values(v, n, tf) 
    79133 File
    79134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79135 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79136 values, outside = self.vertex_values(v, xf) 
    79137 File
    79138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79139 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79140 out_of_bounds_list = True) 
    79141 File
    79142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79143 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79144 subregion, step) 
    79145 File
    79146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79147 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79148 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79149 File
    79150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79151 packages/chimerax/map/volume.py", line 1243, in
    79152 matrix_indices_to_xyz_transform 
    79153 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79154 File
    79155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79156 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79157 r = self.subregion(step, subregion) 
    79158 File
    79159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79160 packages/chimerax/map/volume.py", line 1558, in subregion 
    79161 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79162 AttributeError: 'NoneType' object has no attribute 'size' 
    79163  
    79164 AttributeError: 'NoneType' object has no attribute 'size' 
    79165  
    79166 File
    79167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79168 packages/chimerax/map/volume.py", line 1558, in subregion 
    79169 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79170  
    79171 See log for complete Python traceback. 
    79172  
    79173 Traceback (most recent call last): 
    79174 File
    79175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79176 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79177 drew = self.draw_new_frame() 
    79178 File
    79179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79180 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79181 surface.update_clip_caps(view) 
    79182 File
    79183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79184 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79185 subdivision = settings.clipping_cap_subdivision) 
    79186 File
    79187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79188 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79189 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79190 File
    79191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79192 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79193 cm.set_geometry(varray, narray, tarray) 
    79194 File
    79195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79196 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79197 arv() 
    79198 File
    79199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79200 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79201 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79202 File
    79203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79204 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79205 s.vertex_colors = self.vertex_colors(report_stats) 
    79206 File
    79207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79208 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79209 values, outside = self.volume_values() 
    79210 File
    79211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79212 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79213 return self.offset_values(v, n, tf) 
    79214 File
    79215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79216 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79217 values, outside = self.vertex_values(v, xf) 
    79218 File
    79219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79220 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79221 out_of_bounds_list = True) 
    79222 File
    79223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79224 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79225 subregion, step) 
    79226 File
    79227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79228 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79229 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79230 File
    79231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79232 packages/chimerax/map/volume.py", line 1243, in
    79233 matrix_indices_to_xyz_transform 
    79234 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79235 File
    79236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79237 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79238 r = self.subregion(step, subregion) 
    79239 File
    79240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79241 packages/chimerax/map/volume.py", line 1558, in subregion 
    79242 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79243 AttributeError: 'NoneType' object has no attribute 'size' 
    79244  
    79245 AttributeError: 'NoneType' object has no attribute 'size' 
    79246  
    79247 File
    79248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79249 packages/chimerax/map/volume.py", line 1558, in subregion 
    79250 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79251  
    79252 See log for complete Python traceback. 
    79253  
    79254 Traceback (most recent call last): 
    79255 File
    79256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79257 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79258 drew = self.draw_new_frame() 
    79259 File
    79260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79261 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79262 surface.update_clip_caps(view) 
    79263 File
    79264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79265 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79266 subdivision = settings.clipping_cap_subdivision) 
    79267 File
    79268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79269 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79270 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79271 File
    79272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79273 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79274 cm.set_geometry(varray, narray, tarray) 
    79275 File
    79276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79277 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79278 arv() 
    79279 File
    79280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79281 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79282 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79283 File
    79284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79285 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79286 s.vertex_colors = self.vertex_colors(report_stats) 
    79287 File
    79288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79289 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79290 values, outside = self.volume_values() 
    79291 File
    79292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79293 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79294 return self.offset_values(v, n, tf) 
    79295 File
    79296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79297 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79298 values, outside = self.vertex_values(v, xf) 
    79299 File
    79300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79301 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79302 out_of_bounds_list = True) 
    79303 File
    79304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79305 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79306 subregion, step) 
    79307 File
    79308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79309 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79310 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79311 File
    79312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79313 packages/chimerax/map/volume.py", line 1243, in
    79314 matrix_indices_to_xyz_transform 
    79315 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79316 File
    79317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79318 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79319 r = self.subregion(step, subregion) 
    79320 File
    79321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79322 packages/chimerax/map/volume.py", line 1558, in subregion 
    79323 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79324 AttributeError: 'NoneType' object has no attribute 'size' 
    79325  
    79326 AttributeError: 'NoneType' object has no attribute 'size' 
    79327  
    79328 File
    79329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79330 packages/chimerax/map/volume.py", line 1558, in subregion 
    79331 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79332  
    79333 See log for complete Python traceback. 
    79334  
    79335 Traceback (most recent call last): 
    79336 File
    79337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79338 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79339 drew = self.draw_new_frame() 
    79340 File
    79341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79342 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79343 surface.update_clip_caps(view) 
    79344 File
    79345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79346 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79347 subdivision = settings.clipping_cap_subdivision) 
    79348 File
    79349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79350 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79351 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79352 File
    79353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79354 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79355 cm.set_geometry(varray, narray, tarray) 
    79356 File
    79357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79358 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79359 arv() 
    79360 File
    79361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79362 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79363 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79364 File
    79365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79366 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79367 s.vertex_colors = self.vertex_colors(report_stats) 
    79368 File
    79369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79370 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79371 values, outside = self.volume_values() 
    79372 File
    79373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79374 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79375 return self.offset_values(v, n, tf) 
    79376 File
    79377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79378 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79379 values, outside = self.vertex_values(v, xf) 
    79380 File
    79381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79382 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79383 out_of_bounds_list = True) 
    79384 File
    79385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79386 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79387 subregion, step) 
    79388 File
    79389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79390 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79391 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79392 File
    79393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79394 packages/chimerax/map/volume.py", line 1243, in
    79395 matrix_indices_to_xyz_transform 
    79396 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79397 File
    79398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79399 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79400 r = self.subregion(step, subregion) 
    79401 File
    79402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79403 packages/chimerax/map/volume.py", line 1558, in subregion 
    79404 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79405 AttributeError: 'NoneType' object has no attribute 'size' 
    79406  
    79407 AttributeError: 'NoneType' object has no attribute 'size' 
    79408  
    79409 File
    79410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79411 packages/chimerax/map/volume.py", line 1558, in subregion 
    79412 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79413  
    79414 See log for complete Python traceback. 
    79415  
    79416 Traceback (most recent call last): 
    79417 File
    79418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79419 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79420 drew = self.draw_new_frame() 
    79421 File
    79422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79423 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79424 surface.update_clip_caps(view) 
    79425 File
    79426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79427 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79428 subdivision = settings.clipping_cap_subdivision) 
    79429 File
    79430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79431 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79432 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79433 File
    79434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79435 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79436 cm.set_geometry(varray, narray, tarray) 
    79437 File
    79438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79439 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79440 arv() 
    79441 File
    79442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79443 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79444 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79445 File
    79446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79447 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79448 s.vertex_colors = self.vertex_colors(report_stats) 
    79449 File
    79450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79451 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79452 values, outside = self.volume_values() 
    79453 File
    79454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79455 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79456 return self.offset_values(v, n, tf) 
    79457 File
    79458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79459 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79460 values, outside = self.vertex_values(v, xf) 
    79461 File
    79462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79463 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79464 out_of_bounds_list = True) 
    79465 File
    79466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79467 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79468 subregion, step) 
    79469 File
    79470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79471 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79472 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79473 File
    79474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79475 packages/chimerax/map/volume.py", line 1243, in
    79476 matrix_indices_to_xyz_transform 
    79477 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79478 File
    79479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79480 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79481 r = self.subregion(step, subregion) 
    79482 File
    79483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79484 packages/chimerax/map/volume.py", line 1558, in subregion 
    79485 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79486 AttributeError: 'NoneType' object has no attribute 'size' 
    79487  
    79488 AttributeError: 'NoneType' object has no attribute 'size' 
    79489  
    79490 File
    79491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79492 packages/chimerax/map/volume.py", line 1558, in subregion 
    79493 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79494  
    79495 See log for complete Python traceback. 
    79496  
    79497 Traceback (most recent call last): 
    79498 File
    79499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79500 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79501 drew = self.draw_new_frame() 
    79502 File
    79503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79504 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79505 surface.update_clip_caps(view) 
    79506 File
    79507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79508 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79509 subdivision = settings.clipping_cap_subdivision) 
    79510 File
    79511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79512 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79513 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79514 File
    79515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79516 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79517 cm.set_geometry(varray, narray, tarray) 
    79518 File
    79519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79520 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79521 arv() 
    79522 File
    79523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79524 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79525 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79526 File
    79527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79528 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79529 s.vertex_colors = self.vertex_colors(report_stats) 
    79530 File
    79531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79532 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79533 values, outside = self.volume_values() 
    79534 File
    79535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79536 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79537 return self.offset_values(v, n, tf) 
    79538 File
    79539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79540 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79541 values, outside = self.vertex_values(v, xf) 
    79542 File
    79543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79544 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79545 out_of_bounds_list = True) 
    79546 File
    79547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79548 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79549 subregion, step) 
    79550 File
    79551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79552 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79553 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79554 File
    79555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79556 packages/chimerax/map/volume.py", line 1243, in
    79557 matrix_indices_to_xyz_transform 
    79558 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79559 File
    79560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79561 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79562 r = self.subregion(step, subregion) 
    79563 File
    79564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79565 packages/chimerax/map/volume.py", line 1558, in subregion 
    79566 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79567 AttributeError: 'NoneType' object has no attribute 'size' 
    79568  
    79569 AttributeError: 'NoneType' object has no attribute 'size' 
    79570  
    79571 File
    79572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79573 packages/chimerax/map/volume.py", line 1558, in subregion 
    79574 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79575  
    79576 See log for complete Python traceback. 
    79577  
    79578 Traceback (most recent call last): 
    79579 File
    79580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79581 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79582 drew = self.draw_new_frame() 
    79583 File
    79584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79585 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79586 surface.update_clip_caps(view) 
    79587 File
    79588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79589 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79590 subdivision = settings.clipping_cap_subdivision) 
    79591 File
    79592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79593 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79594 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79595 File
    79596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79597 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79598 cm.set_geometry(varray, narray, tarray) 
    79599 File
    79600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79601 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79602 arv() 
    79603 File
    79604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79605 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79606 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79607 File
    79608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79609 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79610 s.vertex_colors = self.vertex_colors(report_stats) 
    79611 File
    79612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79613 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79614 values, outside = self.volume_values() 
    79615 File
    79616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79617 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79618 return self.offset_values(v, n, tf) 
    79619 File
    79620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79621 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79622 values, outside = self.vertex_values(v, xf) 
    79623 File
    79624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79625 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79626 out_of_bounds_list = True) 
    79627 File
    79628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79629 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79630 subregion, step) 
    79631 File
    79632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79633 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79634 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79635 File
    79636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79637 packages/chimerax/map/volume.py", line 1243, in
    79638 matrix_indices_to_xyz_transform 
    79639 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79640 File
    79641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79642 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79643 r = self.subregion(step, subregion) 
    79644 File
    79645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79646 packages/chimerax/map/volume.py", line 1558, in subregion 
    79647 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79648 AttributeError: 'NoneType' object has no attribute 'size' 
    79649  
    79650 AttributeError: 'NoneType' object has no attribute 'size' 
    79651  
    79652 File
    79653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79654 packages/chimerax/map/volume.py", line 1558, in subregion 
    79655 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79656  
    79657 See log for complete Python traceback. 
    79658  
    79659 Traceback (most recent call last): 
    79660 File
    79661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79662 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79663 drew = self.draw_new_frame() 
    79664 File
    79665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79666 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79667 surface.update_clip_caps(view) 
    79668 File
    79669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79670 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79671 subdivision = settings.clipping_cap_subdivision) 
    79672 File
    79673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79674 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79675 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79676 File
    79677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79678 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79679 cm.set_geometry(varray, narray, tarray) 
    79680 File
    79681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79682 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79683 arv() 
    79684 File
    79685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79686 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79687 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79688 File
    79689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79690 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79691 s.vertex_colors = self.vertex_colors(report_stats) 
    79692 File
    79693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79694 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79695 values, outside = self.volume_values() 
    79696 File
    79697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79698 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79699 return self.offset_values(v, n, tf) 
    79700 File
    79701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79702 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79703 values, outside = self.vertex_values(v, xf) 
    79704 File
    79705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79706 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79707 out_of_bounds_list = True) 
    79708 File
    79709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79710 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79711 subregion, step) 
    79712 File
    79713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79714 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79715 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79716 File
    79717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79718 packages/chimerax/map/volume.py", line 1243, in
    79719 matrix_indices_to_xyz_transform 
    79720 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79721 File
    79722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79723 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79724 r = self.subregion(step, subregion) 
    79725 File
    79726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79727 packages/chimerax/map/volume.py", line 1558, in subregion 
    79728 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79729 AttributeError: 'NoneType' object has no attribute 'size' 
    79730  
    79731 AttributeError: 'NoneType' object has no attribute 'size' 
    79732  
    79733 File
    79734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79735 packages/chimerax/map/volume.py", line 1558, in subregion 
    79736 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79737  
    79738 See log for complete Python traceback. 
    79739  
    79740 Traceback (most recent call last): 
    79741 File
    79742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79743 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79744 drew = self.draw_new_frame() 
    79745 File
    79746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79747 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79748 surface.update_clip_caps(view) 
    79749 File
    79750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79751 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79752 subdivision = settings.clipping_cap_subdivision) 
    79753 File
    79754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79755 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79756 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79757 File
    79758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79759 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79760 cm.set_geometry(varray, narray, tarray) 
    79761 File
    79762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79763 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79764 arv() 
    79765 File
    79766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79767 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79768 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79769 File
    79770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79771 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79772 s.vertex_colors = self.vertex_colors(report_stats) 
    79773 File
    79774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79775 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79776 values, outside = self.volume_values() 
    79777 File
    79778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79779 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79780 return self.offset_values(v, n, tf) 
    79781 File
    79782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79783 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79784 values, outside = self.vertex_values(v, xf) 
    79785 File
    79786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79787 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79788 out_of_bounds_list = True) 
    79789 File
    79790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79791 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79792 subregion, step) 
    79793 File
    79794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79795 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79796 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79797 File
    79798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79799 packages/chimerax/map/volume.py", line 1243, in
    79800 matrix_indices_to_xyz_transform 
    79801 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79802 File
    79803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79804 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79805 r = self.subregion(step, subregion) 
    79806 File
    79807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79808 packages/chimerax/map/volume.py", line 1558, in subregion 
    79809 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79810 AttributeError: 'NoneType' object has no attribute 'size' 
    79811  
    79812 AttributeError: 'NoneType' object has no attribute 'size' 
    79813  
    79814 File
    79815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79816 packages/chimerax/map/volume.py", line 1558, in subregion 
    79817 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79818  
    79819 See log for complete Python traceback. 
    79820  
    79821 Traceback (most recent call last): 
    79822 File
    79823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79824 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79825 drew = self.draw_new_frame() 
    79826 File
    79827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79828 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79829 surface.update_clip_caps(view) 
    79830 File
    79831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79832 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79833 subdivision = settings.clipping_cap_subdivision) 
    79834 File
    79835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79836 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79837 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79838 File
    79839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79840 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79841 cm.set_geometry(varray, narray, tarray) 
    79842 File
    79843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79844 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79845 arv() 
    79846 File
    79847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79848 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79849 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79850 File
    79851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79852 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79853 s.vertex_colors = self.vertex_colors(report_stats) 
    79854 File
    79855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79856 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79857 values, outside = self.volume_values() 
    79858 File
    79859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79860 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79861 return self.offset_values(v, n, tf) 
    79862 File
    79863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79864 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79865 values, outside = self.vertex_values(v, xf) 
    79866 File
    79867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79868 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79869 out_of_bounds_list = True) 
    79870 File
    79871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79872 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79873 subregion, step) 
    79874 File
    79875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79876 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79877 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79878 File
    79879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79880 packages/chimerax/map/volume.py", line 1243, in
    79881 matrix_indices_to_xyz_transform 
    79882 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79883 File
    79884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79885 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79886 r = self.subregion(step, subregion) 
    79887 File
    79888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79889 packages/chimerax/map/volume.py", line 1558, in subregion 
    79890 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79891 AttributeError: 'NoneType' object has no attribute 'size' 
    79892  
    79893 AttributeError: 'NoneType' object has no attribute 'size' 
    79894  
    79895 File
    79896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79897 packages/chimerax/map/volume.py", line 1558, in subregion 
    79898 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79899  
    79900 See log for complete Python traceback. 
    79901  
    79902 Traceback (most recent call last): 
    79903 File
    79904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79905 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79906 drew = self.draw_new_frame() 
    79907 File
    79908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79909 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79910 surface.update_clip_caps(view) 
    79911 File
    79912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79913 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79914 subdivision = settings.clipping_cap_subdivision) 
    79915 File
    79916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79917 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79918 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    79919 File
    79920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79921 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    79922 cm.set_geometry(varray, narray, tarray) 
    79923 File
    79924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79925 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    79926 arv() 
    79927 File
    79928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79929 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    79930 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    79931 File
    79932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79933 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    79934 s.vertex_colors = self.vertex_colors(report_stats) 
    79935 File
    79936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79937 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    79938 values, outside = self.volume_values() 
    79939 File
    79940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79941 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    79942 return self.offset_values(v, n, tf) 
    79943 File
    79944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79945 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    79946 values, outside = self.vertex_values(v, xf) 
    79947 File
    79948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79949 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    79950 out_of_bounds_list = True) 
    79951 File
    79952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79953 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    79954 subregion, step) 
    79955 File
    79956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79957 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    79958 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    79959 File
    79960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79961 packages/chimerax/map/volume.py", line 1243, in
    79962 matrix_indices_to_xyz_transform 
    79963 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    79964 File
    79965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79966 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    79967 r = self.subregion(step, subregion) 
    79968 File
    79969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79970 packages/chimerax/map/volume.py", line 1558, in subregion 
    79971 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79972 AttributeError: 'NoneType' object has no attribute 'size' 
    79973  
    79974 AttributeError: 'NoneType' object has no attribute 'size' 
    79975  
    79976 File
    79977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79978 packages/chimerax/map/volume.py", line 1558, in subregion 
    79979 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    79980  
    79981 See log for complete Python traceback. 
    79982  
    79983 Traceback (most recent call last): 
    79984 File
    79985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79986 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    79987 drew = self.draw_new_frame() 
    79988 File
    79989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79990 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    79991 surface.update_clip_caps(view) 
    79992 File
    79993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79994 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    79995 subdivision = settings.clipping_cap_subdivision) 
    79996 File
    79997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    79998 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    79999 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80000 File
    80001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80002 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80003 cm.set_geometry(varray, narray, tarray) 
    80004 File
    80005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80006 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80007 arv() 
    80008 File
    80009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80010 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80011 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80012 File
    80013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80014 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80015 s.vertex_colors = self.vertex_colors(report_stats) 
    80016 File
    80017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80018 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80019 values, outside = self.volume_values() 
    80020 File
    80021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80022 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80023 return self.offset_values(v, n, tf) 
    80024 File
    80025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80026 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80027 values, outside = self.vertex_values(v, xf) 
    80028 File
    80029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80030 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80031 out_of_bounds_list = True) 
    80032 File
    80033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80034 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80035 subregion, step) 
    80036 File
    80037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80038 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80039 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80040 File
    80041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80042 packages/chimerax/map/volume.py", line 1243, in
    80043 matrix_indices_to_xyz_transform 
    80044 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80045 File
    80046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80047 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80048 r = self.subregion(step, subregion) 
    80049 File
    80050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80051 packages/chimerax/map/volume.py", line 1558, in subregion 
    80052 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80053 AttributeError: 'NoneType' object has no attribute 'size' 
    80054  
    80055 AttributeError: 'NoneType' object has no attribute 'size' 
    80056  
    80057 File
    80058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80059 packages/chimerax/map/volume.py", line 1558, in subregion 
    80060 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80061  
    80062 See log for complete Python traceback. 
    80063  
    80064 Traceback (most recent call last): 
    80065 File
    80066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80067 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80068 drew = self.draw_new_frame() 
    80069 File
    80070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80071 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80072 surface.update_clip_caps(view) 
    80073 File
    80074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80075 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80076 subdivision = settings.clipping_cap_subdivision) 
    80077 File
    80078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80079 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80080 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80081 File
    80082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80083 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80084 cm.set_geometry(varray, narray, tarray) 
    80085 File
    80086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80087 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80088 arv() 
    80089 File
    80090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80091 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80092 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80093 File
    80094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80095 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80096 s.vertex_colors = self.vertex_colors(report_stats) 
    80097 File
    80098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80099 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80100 values, outside = self.volume_values() 
    80101 File
    80102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80103 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80104 return self.offset_values(v, n, tf) 
    80105 File
    80106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80107 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80108 values, outside = self.vertex_values(v, xf) 
    80109 File
    80110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80111 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80112 out_of_bounds_list = True) 
    80113 File
    80114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80115 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80116 subregion, step) 
    80117 File
    80118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80119 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80120 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80121 File
    80122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80123 packages/chimerax/map/volume.py", line 1243, in
    80124 matrix_indices_to_xyz_transform 
    80125 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80126 File
    80127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80128 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80129 r = self.subregion(step, subregion) 
    80130 File
    80131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80132 packages/chimerax/map/volume.py", line 1558, in subregion 
    80133 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80134 AttributeError: 'NoneType' object has no attribute 'size' 
    80135  
    80136 AttributeError: 'NoneType' object has no attribute 'size' 
    80137  
    80138 File
    80139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80140 packages/chimerax/map/volume.py", line 1558, in subregion 
    80141 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80142  
    80143 See log for complete Python traceback. 
    80144  
    80145 Traceback (most recent call last): 
    80146 File
    80147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80148 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80149 drew = self.draw_new_frame() 
    80150 File
    80151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80152 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80153 surface.update_clip_caps(view) 
    80154 File
    80155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80156 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80157 subdivision = settings.clipping_cap_subdivision) 
    80158 File
    80159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80160 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80161 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80162 File
    80163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80164 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80165 cm.set_geometry(varray, narray, tarray) 
    80166 File
    80167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80168 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80169 arv() 
    80170 File
    80171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80172 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80173 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80174 File
    80175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80176 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80177 s.vertex_colors = self.vertex_colors(report_stats) 
    80178 File
    80179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80180 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80181 values, outside = self.volume_values() 
    80182 File
    80183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80184 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80185 return self.offset_values(v, n, tf) 
    80186 File
    80187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80188 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80189 values, outside = self.vertex_values(v, xf) 
    80190 File
    80191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80192 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80193 out_of_bounds_list = True) 
    80194 File
    80195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80196 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80197 subregion, step) 
    80198 File
    80199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80200 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80201 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80202 File
    80203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80204 packages/chimerax/map/volume.py", line 1243, in
    80205 matrix_indices_to_xyz_transform 
    80206 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80207 File
    80208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80209 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80210 r = self.subregion(step, subregion) 
    80211 File
    80212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80213 packages/chimerax/map/volume.py", line 1558, in subregion 
    80214 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80215 AttributeError: 'NoneType' object has no attribute 'size' 
    80216  
    80217 AttributeError: 'NoneType' object has no attribute 'size' 
    80218  
    80219 File
    80220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80221 packages/chimerax/map/volume.py", line 1558, in subregion 
    80222 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80223  
    80224 See log for complete Python traceback. 
    80225  
    80226 Traceback (most recent call last): 
    80227 File
    80228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80229 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80230 drew = self.draw_new_frame() 
    80231 File
    80232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80233 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80234 surface.update_clip_caps(view) 
    80235 File
    80236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80237 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80238 subdivision = settings.clipping_cap_subdivision) 
    80239 File
    80240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80241 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80242 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80243 File
    80244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80245 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80246 cm.set_geometry(varray, narray, tarray) 
    80247 File
    80248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80249 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80250 arv() 
    80251 File
    80252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80253 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80254 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80255 File
    80256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80257 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80258 s.vertex_colors = self.vertex_colors(report_stats) 
    80259 File
    80260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80261 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80262 values, outside = self.volume_values() 
    80263 File
    80264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80265 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80266 return self.offset_values(v, n, tf) 
    80267 File
    80268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80269 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80270 values, outside = self.vertex_values(v, xf) 
    80271 File
    80272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80273 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80274 out_of_bounds_list = True) 
    80275 File
    80276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80277 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80278 subregion, step) 
    80279 File
    80280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80281 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80282 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80283 File
    80284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80285 packages/chimerax/map/volume.py", line 1243, in
    80286 matrix_indices_to_xyz_transform 
    80287 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80288 File
    80289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80290 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80291 r = self.subregion(step, subregion) 
    80292 File
    80293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80294 packages/chimerax/map/volume.py", line 1558, in subregion 
    80295 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80296 AttributeError: 'NoneType' object has no attribute 'size' 
    80297  
    80298 AttributeError: 'NoneType' object has no attribute 'size' 
    80299  
    80300 File
    80301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80302 packages/chimerax/map/volume.py", line 1558, in subregion 
    80303 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80304  
    80305 See log for complete Python traceback. 
    80306  
    80307 Traceback (most recent call last): 
    80308 File
    80309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80310 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80311 drew = self.draw_new_frame() 
    80312 File
    80313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80314 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80315 surface.update_clip_caps(view) 
    80316 File
    80317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80318 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80319 subdivision = settings.clipping_cap_subdivision) 
    80320 File
    80321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80322 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80323 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80324 File
    80325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80326 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80327 cm.set_geometry(varray, narray, tarray) 
    80328 File
    80329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80330 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80331 arv() 
    80332 File
    80333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80334 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80335 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80336 File
    80337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80338 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80339 s.vertex_colors = self.vertex_colors(report_stats) 
    80340 File
    80341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80342 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80343 values, outside = self.volume_values() 
    80344 File
    80345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80346 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80347 return self.offset_values(v, n, tf) 
    80348 File
    80349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80350 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80351 values, outside = self.vertex_values(v, xf) 
    80352 File
    80353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80354 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80355 out_of_bounds_list = True) 
    80356 File
    80357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80358 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80359 subregion, step) 
    80360 File
    80361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80362 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80363 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80364 File
    80365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80366 packages/chimerax/map/volume.py", line 1243, in
    80367 matrix_indices_to_xyz_transform 
    80368 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80369 File
    80370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80371 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80372 r = self.subregion(step, subregion) 
    80373 File
    80374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80375 packages/chimerax/map/volume.py", line 1558, in subregion 
    80376 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80377 AttributeError: 'NoneType' object has no attribute 'size' 
    80378  
    80379 AttributeError: 'NoneType' object has no attribute 'size' 
    80380  
    80381 File
    80382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80383 packages/chimerax/map/volume.py", line 1558, in subregion 
    80384 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80385  
    80386 See log for complete Python traceback. 
    80387  
    80388 Traceback (most recent call last): 
    80389 File
    80390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80391 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80392 drew = self.draw_new_frame() 
    80393 File
    80394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80395 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80396 surface.update_clip_caps(view) 
    80397 File
    80398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80399 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80400 subdivision = settings.clipping_cap_subdivision) 
    80401 File
    80402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80403 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80404 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80405 File
    80406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80407 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80408 cm.set_geometry(varray, narray, tarray) 
    80409 File
    80410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80411 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80412 arv() 
    80413 File
    80414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80415 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80416 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80417 File
    80418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80419 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80420 s.vertex_colors = self.vertex_colors(report_stats) 
    80421 File
    80422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80423 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80424 values, outside = self.volume_values() 
    80425 File
    80426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80427 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80428 return self.offset_values(v, n, tf) 
    80429 File
    80430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80431 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80432 values, outside = self.vertex_values(v, xf) 
    80433 File
    80434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80435 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80436 out_of_bounds_list = True) 
    80437 File
    80438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80439 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80440 subregion, step) 
    80441 File
    80442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80443 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80444 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80445 File
    80446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80447 packages/chimerax/map/volume.py", line 1243, in
    80448 matrix_indices_to_xyz_transform 
    80449 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80450 File
    80451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80452 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80453 r = self.subregion(step, subregion) 
    80454 File
    80455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80456 packages/chimerax/map/volume.py", line 1558, in subregion 
    80457 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80458 AttributeError: 'NoneType' object has no attribute 'size' 
    80459  
    80460 AttributeError: 'NoneType' object has no attribute 'size' 
    80461  
    80462 File
    80463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80464 packages/chimerax/map/volume.py", line 1558, in subregion 
    80465 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80466  
    80467 See log for complete Python traceback. 
    80468  
    80469 Traceback (most recent call last): 
    80470 File
    80471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80472 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80473 drew = self.draw_new_frame() 
    80474 File
    80475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80476 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80477 surface.update_clip_caps(view) 
    80478 File
    80479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80480 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80481 subdivision = settings.clipping_cap_subdivision) 
    80482 File
    80483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80484 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80485 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80486 File
    80487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80488 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80489 cm.set_geometry(varray, narray, tarray) 
    80490 File
    80491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80492 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80493 arv() 
    80494 File
    80495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80496 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80497 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80498 File
    80499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80500 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80501 s.vertex_colors = self.vertex_colors(report_stats) 
    80502 File
    80503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80504 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80505 values, outside = self.volume_values() 
    80506 File
    80507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80508 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80509 return self.offset_values(v, n, tf) 
    80510 File
    80511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80512 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80513 values, outside = self.vertex_values(v, xf) 
    80514 File
    80515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80516 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80517 out_of_bounds_list = True) 
    80518 File
    80519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80520 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80521 subregion, step) 
    80522 File
    80523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80524 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80525 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80526 File
    80527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80528 packages/chimerax/map/volume.py", line 1243, in
    80529 matrix_indices_to_xyz_transform 
    80530 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80531 File
    80532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80533 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80534 r = self.subregion(step, subregion) 
    80535 File
    80536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80537 packages/chimerax/map/volume.py", line 1558, in subregion 
    80538 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80539 AttributeError: 'NoneType' object has no attribute 'size' 
    80540  
    80541 AttributeError: 'NoneType' object has no attribute 'size' 
    80542  
    80543 File
    80544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80545 packages/chimerax/map/volume.py", line 1558, in subregion 
    80546 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80547  
    80548 See log for complete Python traceback. 
    80549  
    80550 Traceback (most recent call last): 
    80551 File
    80552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80553 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80554 drew = self.draw_new_frame() 
    80555 File
    80556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80557 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80558 surface.update_clip_caps(view) 
    80559 File
    80560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80561 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80562 subdivision = settings.clipping_cap_subdivision) 
    80563 File
    80564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80565 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80566 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80567 File
    80568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80569 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80570 cm.set_geometry(varray, narray, tarray) 
    80571 File
    80572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80573 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80574 arv() 
    80575 File
    80576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80577 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80578 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80579 File
    80580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80581 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80582 s.vertex_colors = self.vertex_colors(report_stats) 
    80583 File
    80584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80585 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80586 values, outside = self.volume_values() 
    80587 File
    80588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80589 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80590 return self.offset_values(v, n, tf) 
    80591 File
    80592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80593 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80594 values, outside = self.vertex_values(v, xf) 
    80595 File
    80596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80597 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80598 out_of_bounds_list = True) 
    80599 File
    80600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80601 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80602 subregion, step) 
    80603 File
    80604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80605 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80606 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80607 File
    80608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80609 packages/chimerax/map/volume.py", line 1243, in
    80610 matrix_indices_to_xyz_transform 
    80611 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80612 File
    80613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80614 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80615 r = self.subregion(step, subregion) 
    80616 File
    80617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80618 packages/chimerax/map/volume.py", line 1558, in subregion 
    80619 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80620 AttributeError: 'NoneType' object has no attribute 'size' 
    80621  
    80622 AttributeError: 'NoneType' object has no attribute 'size' 
    80623  
    80624 File
    80625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80626 packages/chimerax/map/volume.py", line 1558, in subregion 
    80627 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80628  
    80629 See log for complete Python traceback. 
    80630  
    80631 Traceback (most recent call last): 
    80632 File
    80633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80634 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80635 drew = self.draw_new_frame() 
    80636 File
    80637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80638 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80639 surface.update_clip_caps(view) 
    80640 File
    80641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80642 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80643 subdivision = settings.clipping_cap_subdivision) 
    80644 File
    80645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80646 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80647 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80648 File
    80649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80650 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80651 cm.set_geometry(varray, narray, tarray) 
    80652 File
    80653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80654 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80655 arv() 
    80656 File
    80657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80658 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80659 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80660 File
    80661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80662 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80663 s.vertex_colors = self.vertex_colors(report_stats) 
    80664 File
    80665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80666 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80667 values, outside = self.volume_values() 
    80668 File
    80669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80670 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80671 return self.offset_values(v, n, tf) 
    80672 File
    80673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80674 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80675 values, outside = self.vertex_values(v, xf) 
    80676 File
    80677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80678 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80679 out_of_bounds_list = True) 
    80680 File
    80681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80682 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80683 subregion, step) 
    80684 File
    80685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80686 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80687 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80688 File
    80689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80690 packages/chimerax/map/volume.py", line 1243, in
    80691 matrix_indices_to_xyz_transform 
    80692 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80693 File
    80694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80695 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80696 r = self.subregion(step, subregion) 
    80697 File
    80698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80699 packages/chimerax/map/volume.py", line 1558, in subregion 
    80700 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80701 AttributeError: 'NoneType' object has no attribute 'size' 
    80702  
    80703 AttributeError: 'NoneType' object has no attribute 'size' 
    80704  
    80705 File
    80706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80707 packages/chimerax/map/volume.py", line 1558, in subregion 
    80708 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80709  
    80710 See log for complete Python traceback. 
    80711  
    80712 Traceback (most recent call last): 
    80713 File
    80714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80715 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80716 drew = self.draw_new_frame() 
    80717 File
    80718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80719 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80720 surface.update_clip_caps(view) 
    80721 File
    80722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80723 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80724 subdivision = settings.clipping_cap_subdivision) 
    80725 File
    80726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80727 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80728 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80729 File
    80730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80731 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80732 cm.set_geometry(varray, narray, tarray) 
    80733 File
    80734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80735 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80736 arv() 
    80737 File
    80738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80739 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80740 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80741 File
    80742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80743 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80744 s.vertex_colors = self.vertex_colors(report_stats) 
    80745 File
    80746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80747 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80748 values, outside = self.volume_values() 
    80749 File
    80750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80751 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80752 return self.offset_values(v, n, tf) 
    80753 File
    80754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80755 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80756 values, outside = self.vertex_values(v, xf) 
    80757 File
    80758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80759 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80760 out_of_bounds_list = True) 
    80761 File
    80762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80763 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80764 subregion, step) 
    80765 File
    80766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80767 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80768 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80769 File
    80770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80771 packages/chimerax/map/volume.py", line 1243, in
    80772 matrix_indices_to_xyz_transform 
    80773 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80774 File
    80775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80776 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80777 r = self.subregion(step, subregion) 
    80778 File
    80779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80780 packages/chimerax/map/volume.py", line 1558, in subregion 
    80781 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80782 AttributeError: 'NoneType' object has no attribute 'size' 
    80783  
    80784 AttributeError: 'NoneType' object has no attribute 'size' 
    80785  
    80786 File
    80787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80788 packages/chimerax/map/volume.py", line 1558, in subregion 
    80789 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80790  
    80791 See log for complete Python traceback. 
    80792  
    80793 Traceback (most recent call last): 
    80794 File
    80795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80796 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80797 drew = self.draw_new_frame() 
    80798 File
    80799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80800 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80801 surface.update_clip_caps(view) 
    80802 File
    80803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80804 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80805 subdivision = settings.clipping_cap_subdivision) 
    80806 File
    80807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80808 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80809 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80810 File
    80811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80812 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80813 cm.set_geometry(varray, narray, tarray) 
    80814 File
    80815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80816 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80817 arv() 
    80818 File
    80819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80820 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80821 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80822 File
    80823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80824 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80825 s.vertex_colors = self.vertex_colors(report_stats) 
    80826 File
    80827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80828 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80829 values, outside = self.volume_values() 
    80830 File
    80831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80832 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80833 return self.offset_values(v, n, tf) 
    80834 File
    80835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80836 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80837 values, outside = self.vertex_values(v, xf) 
    80838 File
    80839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80840 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80841 out_of_bounds_list = True) 
    80842 File
    80843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80844 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80845 subregion, step) 
    80846 File
    80847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80848 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80849 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80850 File
    80851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80852 packages/chimerax/map/volume.py", line 1243, in
    80853 matrix_indices_to_xyz_transform 
    80854 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80855 File
    80856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80857 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80858 r = self.subregion(step, subregion) 
    80859 File
    80860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80861 packages/chimerax/map/volume.py", line 1558, in subregion 
    80862 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80863 AttributeError: 'NoneType' object has no attribute 'size' 
    80864  
    80865 AttributeError: 'NoneType' object has no attribute 'size' 
    80866  
    80867 File
    80868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80869 packages/chimerax/map/volume.py", line 1558, in subregion 
    80870 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80871  
    80872 See log for complete Python traceback. 
    80873  
    80874 Traceback (most recent call last): 
    80875 File
    80876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80877 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80878 drew = self.draw_new_frame() 
    80879 File
    80880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80881 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80882 surface.update_clip_caps(view) 
    80883 File
    80884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80885 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80886 subdivision = settings.clipping_cap_subdivision) 
    80887 File
    80888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80889 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80890 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80891 File
    80892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80893 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80894 cm.set_geometry(varray, narray, tarray) 
    80895 File
    80896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80897 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80898 arv() 
    80899 File
    80900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80901 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80902 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80903 File
    80904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80905 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80906 s.vertex_colors = self.vertex_colors(report_stats) 
    80907 File
    80908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80909 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80910 values, outside = self.volume_values() 
    80911 File
    80912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80913 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80914 return self.offset_values(v, n, tf) 
    80915 File
    80916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80917 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80918 values, outside = self.vertex_values(v, xf) 
    80919 File
    80920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80921 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    80922 out_of_bounds_list = True) 
    80923 File
    80924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80925 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    80926 subregion, step) 
    80927 File
    80928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80929 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    80930 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    80931 File
    80932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80933 packages/chimerax/map/volume.py", line 1243, in
    80934 matrix_indices_to_xyz_transform 
    80935 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    80936 File
    80937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80938 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    80939 r = self.subregion(step, subregion) 
    80940 File
    80941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80942 packages/chimerax/map/volume.py", line 1558, in subregion 
    80943 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80944 AttributeError: 'NoneType' object has no attribute 'size' 
    80945  
    80946 AttributeError: 'NoneType' object has no attribute 'size' 
    80947  
    80948 File
    80949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80950 packages/chimerax/map/volume.py", line 1558, in subregion 
    80951 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    80952  
    80953 See log for complete Python traceback. 
    80954  
    80955 Traceback (most recent call last): 
    80956 File
    80957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80958 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    80959 drew = self.draw_new_frame() 
    80960 File
    80961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80962 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    80963 surface.update_clip_caps(view) 
    80964 File
    80965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80966 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    80967 subdivision = settings.clipping_cap_subdivision) 
    80968 File
    80969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80970 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    80971 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    80972 File
    80973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80974 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    80975 cm.set_geometry(varray, narray, tarray) 
    80976 File
    80977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80978 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    80979 arv() 
    80980 File
    80981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80982 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    80983 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    80984 File
    80985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80986 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    80987 s.vertex_colors = self.vertex_colors(report_stats) 
    80988 File
    80989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80990 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    80991 values, outside = self.volume_values() 
    80992 File
    80993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80994 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    80995 return self.offset_values(v, n, tf) 
    80996 File
    80997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    80998 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    80999 values, outside = self.vertex_values(v, xf) 
    81000 File
    81001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81002 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81003 out_of_bounds_list = True) 
    81004 File
    81005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81006 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81007 subregion, step) 
    81008 File
    81009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81010 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81011 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81012 File
    81013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81014 packages/chimerax/map/volume.py", line 1243, in
    81015 matrix_indices_to_xyz_transform 
    81016 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81017 File
    81018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81019 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81020 r = self.subregion(step, subregion) 
    81021 File
    81022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81023 packages/chimerax/map/volume.py", line 1558, in subregion 
    81024 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81025 AttributeError: 'NoneType' object has no attribute 'size' 
    81026  
    81027 AttributeError: 'NoneType' object has no attribute 'size' 
    81028  
    81029 File
    81030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81031 packages/chimerax/map/volume.py", line 1558, in subregion 
    81032 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81033  
    81034 See log for complete Python traceback. 
    81035  
    81036 Traceback (most recent call last): 
    81037 File
    81038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81039 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81040 drew = self.draw_new_frame() 
    81041 File
    81042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81043 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81044 surface.update_clip_caps(view) 
    81045 File
    81046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81047 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81048 subdivision = settings.clipping_cap_subdivision) 
    81049 File
    81050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81051 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81052 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81053 File
    81054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81055 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81056 cm.set_geometry(varray, narray, tarray) 
    81057 File
    81058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81059 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81060 arv() 
    81061 File
    81062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81063 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81064 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81065 File
    81066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81067 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81068 s.vertex_colors = self.vertex_colors(report_stats) 
    81069 File
    81070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81071 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81072 values, outside = self.volume_values() 
    81073 File
    81074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81075 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81076 return self.offset_values(v, n, tf) 
    81077 File
    81078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81079 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81080 values, outside = self.vertex_values(v, xf) 
    81081 File
    81082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81083 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81084 out_of_bounds_list = True) 
    81085 File
    81086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81087 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81088 subregion, step) 
    81089 File
    81090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81091 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81092 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81093 File
    81094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81095 packages/chimerax/map/volume.py", line 1243, in
    81096 matrix_indices_to_xyz_transform 
    81097 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81098 File
    81099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81100 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81101 r = self.subregion(step, subregion) 
    81102 File
    81103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81104 packages/chimerax/map/volume.py", line 1558, in subregion 
    81105 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81106 AttributeError: 'NoneType' object has no attribute 'size' 
    81107  
    81108 AttributeError: 'NoneType' object has no attribute 'size' 
    81109  
    81110 File
    81111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81112 packages/chimerax/map/volume.py", line 1558, in subregion 
    81113 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81114  
    81115 See log for complete Python traceback. 
    81116  
    81117 Traceback (most recent call last): 
    81118 File
    81119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81120 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81121 drew = self.draw_new_frame() 
    81122 File
    81123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81124 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81125 surface.update_clip_caps(view) 
    81126 File
    81127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81128 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81129 subdivision = settings.clipping_cap_subdivision) 
    81130 File
    81131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81132 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81133 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81134 File
    81135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81136 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81137 cm.set_geometry(varray, narray, tarray) 
    81138 File
    81139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81140 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81141 arv() 
    81142 File
    81143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81144 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81145 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81146 File
    81147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81148 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81149 s.vertex_colors = self.vertex_colors(report_stats) 
    81150 File
    81151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81152 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81153 values, outside = self.volume_values() 
    81154 File
    81155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81156 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81157 return self.offset_values(v, n, tf) 
    81158 File
    81159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81160 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81161 values, outside = self.vertex_values(v, xf) 
    81162 File
    81163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81164 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81165 out_of_bounds_list = True) 
    81166 File
    81167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81168 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81169 subregion, step) 
    81170 File
    81171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81172 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81173 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81174 File
    81175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81176 packages/chimerax/map/volume.py", line 1243, in
    81177 matrix_indices_to_xyz_transform 
    81178 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81179 File
    81180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81181 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81182 r = self.subregion(step, subregion) 
    81183 File
    81184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81185 packages/chimerax/map/volume.py", line 1558, in subregion 
    81186 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81187 AttributeError: 'NoneType' object has no attribute 'size' 
    81188  
    81189 AttributeError: 'NoneType' object has no attribute 'size' 
    81190  
    81191 File
    81192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81193 packages/chimerax/map/volume.py", line 1558, in subregion 
    81194 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81195  
    81196 See log for complete Python traceback. 
    81197  
    81198 Traceback (most recent call last): 
    81199 File
    81200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81201 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81202 drew = self.draw_new_frame() 
    81203 File
    81204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81205 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81206 surface.update_clip_caps(view) 
    81207 File
    81208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81209 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81210 subdivision = settings.clipping_cap_subdivision) 
    81211 File
    81212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81213 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81214 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81215 File
    81216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81217 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81218 cm.set_geometry(varray, narray, tarray) 
    81219 File
    81220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81221 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81222 arv() 
    81223 File
    81224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81225 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81226 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81227 File
    81228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81229 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81230 s.vertex_colors = self.vertex_colors(report_stats) 
    81231 File
    81232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81233 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81234 values, outside = self.volume_values() 
    81235 File
    81236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81237 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81238 return self.offset_values(v, n, tf) 
    81239 File
    81240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81241 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81242 values, outside = self.vertex_values(v, xf) 
    81243 File
    81244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81245 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81246 out_of_bounds_list = True) 
    81247 File
    81248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81249 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81250 subregion, step) 
    81251 File
    81252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81253 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81254 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81255 File
    81256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81257 packages/chimerax/map/volume.py", line 1243, in
    81258 matrix_indices_to_xyz_transform 
    81259 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81260 File
    81261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81262 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81263 r = self.subregion(step, subregion) 
    81264 File
    81265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81266 packages/chimerax/map/volume.py", line 1558, in subregion 
    81267 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81268 AttributeError: 'NoneType' object has no attribute 'size' 
    81269  
    81270 AttributeError: 'NoneType' object has no attribute 'size' 
    81271  
    81272 File
    81273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81274 packages/chimerax/map/volume.py", line 1558, in subregion 
    81275 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81276  
    81277 See log for complete Python traceback. 
    81278  
    81279 Traceback (most recent call last): 
    81280 File
    81281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81282 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81283 drew = self.draw_new_frame() 
    81284 File
    81285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81286 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81287 surface.update_clip_caps(view) 
    81288 File
    81289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81290 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81291 subdivision = settings.clipping_cap_subdivision) 
    81292 File
    81293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81294 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81295 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81296 File
    81297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81298 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81299 cm.set_geometry(varray, narray, tarray) 
    81300 File
    81301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81302 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81303 arv() 
    81304 File
    81305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81306 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81307 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81308 File
    81309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81310 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81311 s.vertex_colors = self.vertex_colors(report_stats) 
    81312 File
    81313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81314 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81315 values, outside = self.volume_values() 
    81316 File
    81317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81318 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81319 return self.offset_values(v, n, tf) 
    81320 File
    81321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81322 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81323 values, outside = self.vertex_values(v, xf) 
    81324 File
    81325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81326 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81327 out_of_bounds_list = True) 
    81328 File
    81329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81330 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81331 subregion, step) 
    81332 File
    81333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81334 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81335 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81336 File
    81337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81338 packages/chimerax/map/volume.py", line 1243, in
    81339 matrix_indices_to_xyz_transform 
    81340 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81341 File
    81342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81343 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81344 r = self.subregion(step, subregion) 
    81345 File
    81346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81347 packages/chimerax/map/volume.py", line 1558, in subregion 
    81348 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81349 AttributeError: 'NoneType' object has no attribute 'size' 
    81350  
    81351 AttributeError: 'NoneType' object has no attribute 'size' 
    81352  
    81353 File
    81354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81355 packages/chimerax/map/volume.py", line 1558, in subregion 
    81356 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81357  
    81358 See log for complete Python traceback. 
    81359  
    81360 Traceback (most recent call last): 
    81361 File
    81362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81363 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81364 drew = self.draw_new_frame() 
    81365 File
    81366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81367 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81368 surface.update_clip_caps(view) 
    81369 File
    81370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81371 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81372 subdivision = settings.clipping_cap_subdivision) 
    81373 File
    81374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81375 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81376 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81377 File
    81378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81379 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81380 cm.set_geometry(varray, narray, tarray) 
    81381 File
    81382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81383 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81384 arv() 
    81385 File
    81386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81387 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81388 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81389 File
    81390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81391 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81392 s.vertex_colors = self.vertex_colors(report_stats) 
    81393 File
    81394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81395 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81396 values, outside = self.volume_values() 
    81397 File
    81398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81399 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81400 return self.offset_values(v, n, tf) 
    81401 File
    81402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81403 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81404 values, outside = self.vertex_values(v, xf) 
    81405 File
    81406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81407 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81408 out_of_bounds_list = True) 
    81409 File
    81410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81411 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81412 subregion, step) 
    81413 File
    81414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81415 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81416 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81417 File
    81418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81419 packages/chimerax/map/volume.py", line 1243, in
    81420 matrix_indices_to_xyz_transform 
    81421 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81422 File
    81423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81424 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81425 r = self.subregion(step, subregion) 
    81426 File
    81427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81428 packages/chimerax/map/volume.py", line 1558, in subregion 
    81429 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81430 AttributeError: 'NoneType' object has no attribute 'size' 
    81431  
    81432 AttributeError: 'NoneType' object has no attribute 'size' 
    81433  
    81434 File
    81435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81436 packages/chimerax/map/volume.py", line 1558, in subregion 
    81437 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81438  
    81439 See log for complete Python traceback. 
    81440  
    81441 Traceback (most recent call last): 
    81442 File
    81443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81444 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81445 drew = self.draw_new_frame() 
    81446 File
    81447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81448 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81449 surface.update_clip_caps(view) 
    81450 File
    81451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81452 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81453 subdivision = settings.clipping_cap_subdivision) 
    81454 File
    81455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81456 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81457 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81458 File
    81459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81460 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81461 cm.set_geometry(varray, narray, tarray) 
    81462 File
    81463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81464 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81465 arv() 
    81466 File
    81467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81468 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81469 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81470 File
    81471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81472 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81473 s.vertex_colors = self.vertex_colors(report_stats) 
    81474 File
    81475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81476 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81477 values, outside = self.volume_values() 
    81478 File
    81479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81480 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81481 return self.offset_values(v, n, tf) 
    81482 File
    81483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81484 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81485 values, outside = self.vertex_values(v, xf) 
    81486 File
    81487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81488 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81489 out_of_bounds_list = True) 
    81490 File
    81491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81492 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81493 subregion, step) 
    81494 File
    81495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81496 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81497 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81498 File
    81499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81500 packages/chimerax/map/volume.py", line 1243, in
    81501 matrix_indices_to_xyz_transform 
    81502 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81503 File
    81504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81505 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81506 r = self.subregion(step, subregion) 
    81507 File
    81508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81509 packages/chimerax/map/volume.py", line 1558, in subregion 
    81510 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81511 AttributeError: 'NoneType' object has no attribute 'size' 
    81512  
    81513 AttributeError: 'NoneType' object has no attribute 'size' 
    81514  
    81515 File
    81516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81517 packages/chimerax/map/volume.py", line 1558, in subregion 
    81518 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81519  
    81520 See log for complete Python traceback. 
    81521  
    81522 Traceback (most recent call last): 
    81523 File
    81524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81525 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81526 drew = self.draw_new_frame() 
    81527 File
    81528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81529 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81530 surface.update_clip_caps(view) 
    81531 File
    81532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81533 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81534 subdivision = settings.clipping_cap_subdivision) 
    81535 File
    81536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81537 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81538 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81539 File
    81540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81541 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81542 cm.set_geometry(varray, narray, tarray) 
    81543 File
    81544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81545 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81546 arv() 
    81547 File
    81548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81549 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81550 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81551 File
    81552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81553 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81554 s.vertex_colors = self.vertex_colors(report_stats) 
    81555 File
    81556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81557 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81558 values, outside = self.volume_values() 
    81559 File
    81560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81561 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81562 return self.offset_values(v, n, tf) 
    81563 File
    81564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81565 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81566 values, outside = self.vertex_values(v, xf) 
    81567 File
    81568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81569 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81570 out_of_bounds_list = True) 
    81571 File
    81572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81573 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81574 subregion, step) 
    81575 File
    81576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81577 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81578 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81579 File
    81580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81581 packages/chimerax/map/volume.py", line 1243, in
    81582 matrix_indices_to_xyz_transform 
    81583 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81584 File
    81585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81586 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81587 r = self.subregion(step, subregion) 
    81588 File
    81589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81590 packages/chimerax/map/volume.py", line 1558, in subregion 
    81591 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81592 AttributeError: 'NoneType' object has no attribute 'size' 
    81593  
    81594 AttributeError: 'NoneType' object has no attribute 'size' 
    81595  
    81596 File
    81597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81598 packages/chimerax/map/volume.py", line 1558, in subregion 
    81599 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81600  
    81601 See log for complete Python traceback. 
    81602  
    81603 Traceback (most recent call last): 
    81604 File
    81605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81606 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81607 drew = self.draw_new_frame() 
    81608 File
    81609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81610 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81611 surface.update_clip_caps(view) 
    81612 File
    81613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81614 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81615 subdivision = settings.clipping_cap_subdivision) 
    81616 File
    81617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81618 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81619 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81620 File
    81621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81622 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81623 cm.set_geometry(varray, narray, tarray) 
    81624 File
    81625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81626 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81627 arv() 
    81628 File
    81629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81630 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81631 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81632 File
    81633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81634 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81635 s.vertex_colors = self.vertex_colors(report_stats) 
    81636 File
    81637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81638 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81639 values, outside = self.volume_values() 
    81640 File
    81641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81642 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81643 return self.offset_values(v, n, tf) 
    81644 File
    81645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81646 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81647 values, outside = self.vertex_values(v, xf) 
    81648 File
    81649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81650 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81651 out_of_bounds_list = True) 
    81652 File
    81653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81654 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81655 subregion, step) 
    81656 File
    81657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81658 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81659 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81660 File
    81661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81662 packages/chimerax/map/volume.py", line 1243, in
    81663 matrix_indices_to_xyz_transform 
    81664 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81665 File
    81666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81667 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81668 r = self.subregion(step, subregion) 
    81669 File
    81670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81671 packages/chimerax/map/volume.py", line 1558, in subregion 
    81672 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81673 AttributeError: 'NoneType' object has no attribute 'size' 
    81674  
    81675 AttributeError: 'NoneType' object has no attribute 'size' 
    81676  
    81677 File
    81678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81679 packages/chimerax/map/volume.py", line 1558, in subregion 
    81680 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81681  
    81682 See log for complete Python traceback. 
    81683  
    81684 Traceback (most recent call last): 
    81685 File
    81686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81687 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81688 drew = self.draw_new_frame() 
    81689 File
    81690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81691 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81692 surface.update_clip_caps(view) 
    81693 File
    81694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81695 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81696 subdivision = settings.clipping_cap_subdivision) 
    81697 File
    81698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81699 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81700 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81701 File
    81702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81703 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81704 cm.set_geometry(varray, narray, tarray) 
    81705 File
    81706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81707 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81708 arv() 
    81709 File
    81710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81711 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81712 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81713 File
    81714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81715 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81716 s.vertex_colors = self.vertex_colors(report_stats) 
    81717 File
    81718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81719 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81720 values, outside = self.volume_values() 
    81721 File
    81722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81723 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81724 return self.offset_values(v, n, tf) 
    81725 File
    81726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81727 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81728 values, outside = self.vertex_values(v, xf) 
    81729 File
    81730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81731 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81732 out_of_bounds_list = True) 
    81733 File
    81734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81735 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81736 subregion, step) 
    81737 File
    81738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81739 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81740 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81741 File
    81742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81743 packages/chimerax/map/volume.py", line 1243, in
    81744 matrix_indices_to_xyz_transform 
    81745 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81746 File
    81747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81748 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81749 r = self.subregion(step, subregion) 
    81750 File
    81751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81752 packages/chimerax/map/volume.py", line 1558, in subregion 
    81753 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81754 AttributeError: 'NoneType' object has no attribute 'size' 
    81755  
    81756 AttributeError: 'NoneType' object has no attribute 'size' 
    81757  
    81758 File
    81759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81760 packages/chimerax/map/volume.py", line 1558, in subregion 
    81761 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81762  
    81763 See log for complete Python traceback. 
    81764  
    81765 Traceback (most recent call last): 
    81766 File
    81767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81768 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81769 drew = self.draw_new_frame() 
    81770 File
    81771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81772 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81773 surface.update_clip_caps(view) 
    81774 File
    81775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81776 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81777 subdivision = settings.clipping_cap_subdivision) 
    81778 File
    81779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81780 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81781 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81782 File
    81783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81784 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81785 cm.set_geometry(varray, narray, tarray) 
    81786 File
    81787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81788 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81789 arv() 
    81790 File
    81791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81792 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81793 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81794 File
    81795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81796 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81797 s.vertex_colors = self.vertex_colors(report_stats) 
    81798 File
    81799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81800 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81801 values, outside = self.volume_values() 
    81802 File
    81803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81804 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81805 return self.offset_values(v, n, tf) 
    81806 File
    81807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81808 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81809 values, outside = self.vertex_values(v, xf) 
    81810 File
    81811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81812 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81813 out_of_bounds_list = True) 
    81814 File
    81815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81816 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81817 subregion, step) 
    81818 File
    81819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81820 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81821 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81822 File
    81823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81824 packages/chimerax/map/volume.py", line 1243, in
    81825 matrix_indices_to_xyz_transform 
    81826 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81827 File
    81828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81829 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81830 r = self.subregion(step, subregion) 
    81831 File
    81832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81833 packages/chimerax/map/volume.py", line 1558, in subregion 
    81834 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81835 AttributeError: 'NoneType' object has no attribute 'size' 
    81836  
    81837 AttributeError: 'NoneType' object has no attribute 'size' 
    81838  
    81839 File
    81840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81841 packages/chimerax/map/volume.py", line 1558, in subregion 
    81842 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81843  
    81844 See log for complete Python traceback. 
    81845  
    81846 Traceback (most recent call last): 
    81847 File
    81848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81849 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81850 drew = self.draw_new_frame() 
    81851 File
    81852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81853 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81854 surface.update_clip_caps(view) 
    81855 File
    81856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81857 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81858 subdivision = settings.clipping_cap_subdivision) 
    81859 File
    81860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81861 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81862 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81863 File
    81864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81865 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81866 cm.set_geometry(varray, narray, tarray) 
    81867 File
    81868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81869 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81870 arv() 
    81871 File
    81872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81873 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81874 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81875 File
    81876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81877 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81878 s.vertex_colors = self.vertex_colors(report_stats) 
    81879 File
    81880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81881 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81882 values, outside = self.volume_values() 
    81883 File
    81884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81885 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81886 return self.offset_values(v, n, tf) 
    81887 File
    81888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81889 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81890 values, outside = self.vertex_values(v, xf) 
    81891 File
    81892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81893 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81894 out_of_bounds_list = True) 
    81895 File
    81896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81897 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81898 subregion, step) 
    81899 File
    81900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81901 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81902 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81903 File
    81904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81905 packages/chimerax/map/volume.py", line 1243, in
    81906 matrix_indices_to_xyz_transform 
    81907 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81908 File
    81909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81910 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81911 r = self.subregion(step, subregion) 
    81912 File
    81913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81914 packages/chimerax/map/volume.py", line 1558, in subregion 
    81915 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81916 AttributeError: 'NoneType' object has no attribute 'size' 
    81917  
    81918 AttributeError: 'NoneType' object has no attribute 'size' 
    81919  
    81920 File
    81921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81922 packages/chimerax/map/volume.py", line 1558, in subregion 
    81923 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81924  
    81925 See log for complete Python traceback. 
    81926  
    81927 Traceback (most recent call last): 
    81928 File
    81929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81930 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    81931 drew = self.draw_new_frame() 
    81932 File
    81933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81934 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    81935 surface.update_clip_caps(view) 
    81936 File
    81937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81938 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    81939 subdivision = settings.clipping_cap_subdivision) 
    81940 File
    81941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81942 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    81943 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    81944 File
    81945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81946 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    81947 cm.set_geometry(varray, narray, tarray) 
    81948 File
    81949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81950 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    81951 arv() 
    81952 File
    81953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81954 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    81955 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    81956 File
    81957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81958 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    81959 s.vertex_colors = self.vertex_colors(report_stats) 
    81960 File
    81961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81962 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    81963 values, outside = self.volume_values() 
    81964 File
    81965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81966 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    81967 return self.offset_values(v, n, tf) 
    81968 File
    81969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81970 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    81971 values, outside = self.vertex_values(v, xf) 
    81972 File
    81973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81974 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    81975 out_of_bounds_list = True) 
    81976 File
    81977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81978 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    81979 subregion, step) 
    81980 File
    81981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81982 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    81983 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    81984 File
    81985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81986 packages/chimerax/map/volume.py", line 1243, in
    81987 matrix_indices_to_xyz_transform 
    81988 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    81989 File
    81990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81991 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    81992 r = self.subregion(step, subregion) 
    81993 File
    81994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    81995 packages/chimerax/map/volume.py", line 1558, in subregion 
    81996 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    81997 AttributeError: 'NoneType' object has no attribute 'size' 
    81998  
    81999 AttributeError: 'NoneType' object has no attribute 'size' 
    82000  
    82001 File
    82002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82003 packages/chimerax/map/volume.py", line 1558, in subregion 
    82004 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82005  
    82006 See log for complete Python traceback. 
    82007  
    82008 Traceback (most recent call last): 
    82009 File
    82010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82011 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82012 drew = self.draw_new_frame() 
    82013 File
    82014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82015 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82016 surface.update_clip_caps(view) 
    82017 File
    82018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82019 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82020 subdivision = settings.clipping_cap_subdivision) 
    82021 File
    82022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82023 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82024 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82025 File
    82026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82027 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82028 cm.set_geometry(varray, narray, tarray) 
    82029 File
    82030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82031 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82032 arv() 
    82033 File
    82034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82035 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82036 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82037 File
    82038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82039 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82040 s.vertex_colors = self.vertex_colors(report_stats) 
    82041 File
    82042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82043 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82044 values, outside = self.volume_values() 
    82045 File
    82046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82047 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82048 return self.offset_values(v, n, tf) 
    82049 File
    82050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82051 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82052 values, outside = self.vertex_values(v, xf) 
    82053 File
    82054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82055 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82056 out_of_bounds_list = True) 
    82057 File
    82058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82059 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82060 subregion, step) 
    82061 File
    82062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82063 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82064 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82065 File
    82066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82067 packages/chimerax/map/volume.py", line 1243, in
    82068 matrix_indices_to_xyz_transform 
    82069 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82070 File
    82071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82072 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82073 r = self.subregion(step, subregion) 
    82074 File
    82075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82076 packages/chimerax/map/volume.py", line 1558, in subregion 
    82077 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82078 AttributeError: 'NoneType' object has no attribute 'size' 
    82079  
    82080 AttributeError: 'NoneType' object has no attribute 'size' 
    82081  
    82082 File
    82083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82084 packages/chimerax/map/volume.py", line 1558, in subregion 
    82085 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82086  
    82087 See log for complete Python traceback. 
    82088  
    82089 Traceback (most recent call last): 
    82090 File
    82091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82092 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82093 drew = self.draw_new_frame() 
    82094 File
    82095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82096 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82097 surface.update_clip_caps(view) 
    82098 File
    82099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82100 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82101 subdivision = settings.clipping_cap_subdivision) 
    82102 File
    82103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82104 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82105 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82106 File
    82107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82108 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82109 cm.set_geometry(varray, narray, tarray) 
    82110 File
    82111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82112 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82113 arv() 
    82114 File
    82115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82116 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82117 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82118 File
    82119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82120 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82121 s.vertex_colors = self.vertex_colors(report_stats) 
    82122 File
    82123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82124 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82125 values, outside = self.volume_values() 
    82126 File
    82127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82128 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82129 return self.offset_values(v, n, tf) 
    82130 File
    82131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82132 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82133 values, outside = self.vertex_values(v, xf) 
    82134 File
    82135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82136 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82137 out_of_bounds_list = True) 
    82138 File
    82139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82140 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82141 subregion, step) 
    82142 File
    82143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82144 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82145 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82146 File
    82147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82148 packages/chimerax/map/volume.py", line 1243, in
    82149 matrix_indices_to_xyz_transform 
    82150 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82151 File
    82152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82153 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82154 r = self.subregion(step, subregion) 
    82155 File
    82156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82157 packages/chimerax/map/volume.py", line 1558, in subregion 
    82158 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82159 AttributeError: 'NoneType' object has no attribute 'size' 
    82160  
    82161 AttributeError: 'NoneType' object has no attribute 'size' 
    82162  
    82163 File
    82164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82165 packages/chimerax/map/volume.py", line 1558, in subregion 
    82166 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82167  
    82168 See log for complete Python traceback. 
    82169  
    82170 Traceback (most recent call last): 
    82171 File
    82172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82173 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82174 drew = self.draw_new_frame() 
    82175 File
    82176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82177 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82178 surface.update_clip_caps(view) 
    82179 File
    82180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82181 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82182 subdivision = settings.clipping_cap_subdivision) 
    82183 File
    82184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82185 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82186 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82187 File
    82188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82189 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82190 cm.set_geometry(varray, narray, tarray) 
    82191 File
    82192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82193 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82194 arv() 
    82195 File
    82196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82197 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82198 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82199 File
    82200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82201 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82202 s.vertex_colors = self.vertex_colors(report_stats) 
    82203 File
    82204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82205 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82206 values, outside = self.volume_values() 
    82207 File
    82208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82209 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82210 return self.offset_values(v, n, tf) 
    82211 File
    82212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82213 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82214 values, outside = self.vertex_values(v, xf) 
    82215 File
    82216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82217 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82218 out_of_bounds_list = True) 
    82219 File
    82220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82221 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82222 subregion, step) 
    82223 File
    82224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82225 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82226 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82227 File
    82228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82229 packages/chimerax/map/volume.py", line 1243, in
    82230 matrix_indices_to_xyz_transform 
    82231 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82232 File
    82233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82234 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82235 r = self.subregion(step, subregion) 
    82236 File
    82237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82238 packages/chimerax/map/volume.py", line 1558, in subregion 
    82239 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82240 AttributeError: 'NoneType' object has no attribute 'size' 
    82241  
    82242 AttributeError: 'NoneType' object has no attribute 'size' 
    82243  
    82244 File
    82245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82246 packages/chimerax/map/volume.py", line 1558, in subregion 
    82247 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82248  
    82249 See log for complete Python traceback. 
    82250  
    82251 Traceback (most recent call last): 
    82252 File
    82253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82254 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82255 drew = self.draw_new_frame() 
    82256 File
    82257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82258 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82259 surface.update_clip_caps(view) 
    82260 File
    82261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82262 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82263 subdivision = settings.clipping_cap_subdivision) 
    82264 File
    82265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82266 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82267 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82268 File
    82269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82270 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82271 cm.set_geometry(varray, narray, tarray) 
    82272 File
    82273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82274 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82275 arv() 
    82276 File
    82277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82278 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82279 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82280 File
    82281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82282 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82283 s.vertex_colors = self.vertex_colors(report_stats) 
    82284 File
    82285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82286 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82287 values, outside = self.volume_values() 
    82288 File
    82289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82290 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82291 return self.offset_values(v, n, tf) 
    82292 File
    82293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82294 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82295 values, outside = self.vertex_values(v, xf) 
    82296 File
    82297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82298 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82299 out_of_bounds_list = True) 
    82300 File
    82301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82302 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82303 subregion, step) 
    82304 File
    82305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82306 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82307 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82308 File
    82309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82310 packages/chimerax/map/volume.py", line 1243, in
    82311 matrix_indices_to_xyz_transform 
    82312 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82313 File
    82314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82315 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82316 r = self.subregion(step, subregion) 
    82317 File
    82318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82319 packages/chimerax/map/volume.py", line 1558, in subregion 
    82320 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82321 AttributeError: 'NoneType' object has no attribute 'size' 
    82322  
    82323 AttributeError: 'NoneType' object has no attribute 'size' 
    82324  
    82325 File
    82326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82327 packages/chimerax/map/volume.py", line 1558, in subregion 
    82328 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82329  
    82330 See log for complete Python traceback. 
    82331  
    82332 Traceback (most recent call last): 
    82333 File
    82334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82335 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82336 drew = self.draw_new_frame() 
    82337 File
    82338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82339 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82340 surface.update_clip_caps(view) 
    82341 File
    82342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82343 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82344 subdivision = settings.clipping_cap_subdivision) 
    82345 File
    82346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82347 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82348 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82349 File
    82350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82351 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82352 cm.set_geometry(varray, narray, tarray) 
    82353 File
    82354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82355 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82356 arv() 
    82357 File
    82358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82359 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82360 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82361 File
    82362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82363 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82364 s.vertex_colors = self.vertex_colors(report_stats) 
    82365 File
    82366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82367 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82368 values, outside = self.volume_values() 
    82369 File
    82370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82371 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82372 return self.offset_values(v, n, tf) 
    82373 File
    82374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82375 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82376 values, outside = self.vertex_values(v, xf) 
    82377 File
    82378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82379 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82380 out_of_bounds_list = True) 
    82381 File
    82382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82383 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82384 subregion, step) 
    82385 File
    82386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82387 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82388 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82389 File
    82390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82391 packages/chimerax/map/volume.py", line 1243, in
    82392 matrix_indices_to_xyz_transform 
    82393 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82394 File
    82395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82396 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82397 r = self.subregion(step, subregion) 
    82398 File
    82399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82400 packages/chimerax/map/volume.py", line 1558, in subregion 
    82401 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82402 AttributeError: 'NoneType' object has no attribute 'size' 
    82403  
    82404 AttributeError: 'NoneType' object has no attribute 'size' 
    82405  
    82406 File
    82407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82408 packages/chimerax/map/volume.py", line 1558, in subregion 
    82409 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82410  
    82411 See log for complete Python traceback. 
    82412  
    82413 Traceback (most recent call last): 
    82414 File
    82415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82416 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82417 drew = self.draw_new_frame() 
    82418 File
    82419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82420 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82421 surface.update_clip_caps(view) 
    82422 File
    82423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82424 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82425 subdivision = settings.clipping_cap_subdivision) 
    82426 File
    82427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82428 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82429 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82430 File
    82431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82432 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82433 cm.set_geometry(varray, narray, tarray) 
    82434 File
    82435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82436 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82437 arv() 
    82438 File
    82439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82440 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82441 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82442 File
    82443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82444 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82445 s.vertex_colors = self.vertex_colors(report_stats) 
    82446 File
    82447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82448 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82449 values, outside = self.volume_values() 
    82450 File
    82451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82452 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82453 return self.offset_values(v, n, tf) 
    82454 File
    82455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82456 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82457 values, outside = self.vertex_values(v, xf) 
    82458 File
    82459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82460 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82461 out_of_bounds_list = True) 
    82462 File
    82463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82464 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82465 subregion, step) 
    82466 File
    82467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82468 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82469 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82470 File
    82471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82472 packages/chimerax/map/volume.py", line 1243, in
    82473 matrix_indices_to_xyz_transform 
    82474 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82475 File
    82476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82477 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82478 r = self.subregion(step, subregion) 
    82479 File
    82480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82481 packages/chimerax/map/volume.py", line 1558, in subregion 
    82482 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82483 AttributeError: 'NoneType' object has no attribute 'size' 
    82484  
    82485 AttributeError: 'NoneType' object has no attribute 'size' 
    82486  
    82487 File
    82488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82489 packages/chimerax/map/volume.py", line 1558, in subregion 
    82490 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82491  
    82492 See log for complete Python traceback. 
    82493  
    82494 Traceback (most recent call last): 
    82495 File
    82496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82497 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82498 drew = self.draw_new_frame() 
    82499 File
    82500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82501 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82502 surface.update_clip_caps(view) 
    82503 File
    82504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82505 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82506 subdivision = settings.clipping_cap_subdivision) 
    82507 File
    82508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82509 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82510 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82511 File
    82512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82513 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82514 cm.set_geometry(varray, narray, tarray) 
    82515 File
    82516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82517 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82518 arv() 
    82519 File
    82520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82521 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82522 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82523 File
    82524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82525 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82526 s.vertex_colors = self.vertex_colors(report_stats) 
    82527 File
    82528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82529 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82530 values, outside = self.volume_values() 
    82531 File
    82532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82533 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82534 return self.offset_values(v, n, tf) 
    82535 File
    82536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82537 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82538 values, outside = self.vertex_values(v, xf) 
    82539 File
    82540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82541 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82542 out_of_bounds_list = True) 
    82543 File
    82544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82545 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82546 subregion, step) 
    82547 File
    82548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82549 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82550 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82551 File
    82552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82553 packages/chimerax/map/volume.py", line 1243, in
    82554 matrix_indices_to_xyz_transform 
    82555 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82556 File
    82557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82558 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82559 r = self.subregion(step, subregion) 
    82560 File
    82561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82562 packages/chimerax/map/volume.py", line 1558, in subregion 
    82563 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82564 AttributeError: 'NoneType' object has no attribute 'size' 
    82565  
    82566 AttributeError: 'NoneType' object has no attribute 'size' 
    82567  
    82568 File
    82569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82570 packages/chimerax/map/volume.py", line 1558, in subregion 
    82571 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82572  
    82573 See log for complete Python traceback. 
    82574  
    82575 Traceback (most recent call last): 
    82576 File
    82577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82578 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82579 drew = self.draw_new_frame() 
    82580 File
    82581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82582 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82583 surface.update_clip_caps(view) 
    82584 File
    82585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82586 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82587 subdivision = settings.clipping_cap_subdivision) 
    82588 File
    82589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82590 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82591 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82592 File
    82593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82594 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82595 cm.set_geometry(varray, narray, tarray) 
    82596 File
    82597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82598 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82599 arv() 
    82600 File
    82601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82602 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82603 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82604 File
    82605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82606 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82607 s.vertex_colors = self.vertex_colors(report_stats) 
    82608 File
    82609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82610 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82611 values, outside = self.volume_values() 
    82612 File
    82613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82614 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82615 return self.offset_values(v, n, tf) 
    82616 File
    82617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82618 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82619 values, outside = self.vertex_values(v, xf) 
    82620 File
    82621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82622 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82623 out_of_bounds_list = True) 
    82624 File
    82625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82626 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82627 subregion, step) 
    82628 File
    82629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82630 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82631 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82632 File
    82633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82634 packages/chimerax/map/volume.py", line 1243, in
    82635 matrix_indices_to_xyz_transform 
    82636 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82637 File
    82638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82639 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82640 r = self.subregion(step, subregion) 
    82641 File
    82642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82643 packages/chimerax/map/volume.py", line 1558, in subregion 
    82644 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82645 AttributeError: 'NoneType' object has no attribute 'size' 
    82646  
    82647 AttributeError: 'NoneType' object has no attribute 'size' 
    82648  
    82649 File
    82650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82651 packages/chimerax/map/volume.py", line 1558, in subregion 
    82652 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82653  
    82654 See log for complete Python traceback. 
    82655  
    82656 Traceback (most recent call last): 
    82657 File
    82658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82659 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82660 drew = self.draw_new_frame() 
    82661 File
    82662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82663 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82664 surface.update_clip_caps(view) 
    82665 File
    82666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82667 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82668 subdivision = settings.clipping_cap_subdivision) 
    82669 File
    82670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82671 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82672 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82673 File
    82674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82675 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82676 cm.set_geometry(varray, narray, tarray) 
    82677 File
    82678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82679 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82680 arv() 
    82681 File
    82682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82683 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82684 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82685 File
    82686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82687 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82688 s.vertex_colors = self.vertex_colors(report_stats) 
    82689 File
    82690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82691 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82692 values, outside = self.volume_values() 
    82693 File
    82694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82695 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82696 return self.offset_values(v, n, tf) 
    82697 File
    82698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82699 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82700 values, outside = self.vertex_values(v, xf) 
    82701 File
    82702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82703 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82704 out_of_bounds_list = True) 
    82705 File
    82706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82707 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82708 subregion, step) 
    82709 File
    82710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82711 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82712 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82713 File
    82714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82715 packages/chimerax/map/volume.py", line 1243, in
    82716 matrix_indices_to_xyz_transform 
    82717 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82718 File
    82719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82720 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82721 r = self.subregion(step, subregion) 
    82722 File
    82723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82724 packages/chimerax/map/volume.py", line 1558, in subregion 
    82725 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82726 AttributeError: 'NoneType' object has no attribute 'size' 
    82727  
    82728 AttributeError: 'NoneType' object has no attribute 'size' 
    82729  
    82730 File
    82731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82732 packages/chimerax/map/volume.py", line 1558, in subregion 
    82733 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82734  
    82735 See log for complete Python traceback. 
    82736  
    82737 Traceback (most recent call last): 
    82738 File
    82739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82740 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82741 drew = self.draw_new_frame() 
    82742 File
    82743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82744 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82745 surface.update_clip_caps(view) 
    82746 File
    82747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82748 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82749 subdivision = settings.clipping_cap_subdivision) 
    82750 File
    82751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82752 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82753 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82754 File
    82755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82756 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82757 cm.set_geometry(varray, narray, tarray) 
    82758 File
    82759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82760 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82761 arv() 
    82762 File
    82763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82764 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82765 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82766 File
    82767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82768 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82769 s.vertex_colors = self.vertex_colors(report_stats) 
    82770 File
    82771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82772 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82773 values, outside = self.volume_values() 
    82774 File
    82775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82776 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82777 return self.offset_values(v, n, tf) 
    82778 File
    82779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82780 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82781 values, outside = self.vertex_values(v, xf) 
    82782 File
    82783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82784 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82785 out_of_bounds_list = True) 
    82786 File
    82787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82788 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82789 subregion, step) 
    82790 File
    82791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82792 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82793 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82794 File
    82795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82796 packages/chimerax/map/volume.py", line 1243, in
    82797 matrix_indices_to_xyz_transform 
    82798 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82799 File
    82800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82801 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82802 r = self.subregion(step, subregion) 
    82803 File
    82804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82805 packages/chimerax/map/volume.py", line 1558, in subregion 
    82806 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82807 AttributeError: 'NoneType' object has no attribute 'size' 
    82808  
    82809 AttributeError: 'NoneType' object has no attribute 'size' 
    82810  
    82811 File
    82812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82813 packages/chimerax/map/volume.py", line 1558, in subregion 
    82814 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82815  
    82816 See log for complete Python traceback. 
    82817  
    82818 Traceback (most recent call last): 
    82819 File
    82820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82821 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82822 drew = self.draw_new_frame() 
    82823 File
    82824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82825 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82826 surface.update_clip_caps(view) 
    82827 File
    82828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82829 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82830 subdivision = settings.clipping_cap_subdivision) 
    82831 File
    82832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82833 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82834 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82835 File
    82836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82837 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82838 cm.set_geometry(varray, narray, tarray) 
    82839 File
    82840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82841 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82842 arv() 
    82843 File
    82844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82845 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82846 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82847 File
    82848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82849 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82850 s.vertex_colors = self.vertex_colors(report_stats) 
    82851 File
    82852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82853 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82854 values, outside = self.volume_values() 
    82855 File
    82856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82857 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82858 return self.offset_values(v, n, tf) 
    82859 File
    82860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82861 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82862 values, outside = self.vertex_values(v, xf) 
    82863 File
    82864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82865 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82866 out_of_bounds_list = True) 
    82867 File
    82868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82869 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82870 subregion, step) 
    82871 File
    82872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82873 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82874 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82875 File
    82876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82877 packages/chimerax/map/volume.py", line 1243, in
    82878 matrix_indices_to_xyz_transform 
    82879 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82880 File
    82881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82882 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82883 r = self.subregion(step, subregion) 
    82884 File
    82885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82886 packages/chimerax/map/volume.py", line 1558, in subregion 
    82887 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82888 AttributeError: 'NoneType' object has no attribute 'size' 
    82889  
    82890 AttributeError: 'NoneType' object has no attribute 'size' 
    82891  
    82892 File
    82893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82894 packages/chimerax/map/volume.py", line 1558, in subregion 
    82895 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82896  
    82897 See log for complete Python traceback. 
    82898  
    82899 Traceback (most recent call last): 
    82900 File
    82901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82902 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82903 drew = self.draw_new_frame() 
    82904 File
    82905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82906 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82907 surface.update_clip_caps(view) 
    82908 File
    82909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82910 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82911 subdivision = settings.clipping_cap_subdivision) 
    82912 File
    82913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82914 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82915 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82916 File
    82917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82918 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    82919 cm.set_geometry(varray, narray, tarray) 
    82920 File
    82921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82922 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    82923 arv() 
    82924 File
    82925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82926 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    82927 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    82928 File
    82929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82930 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    82931 s.vertex_colors = self.vertex_colors(report_stats) 
    82932 File
    82933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82934 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    82935 values, outside = self.volume_values() 
    82936 File
    82937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82938 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    82939 return self.offset_values(v, n, tf) 
    82940 File
    82941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82942 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    82943 values, outside = self.vertex_values(v, xf) 
    82944 File
    82945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82946 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    82947 out_of_bounds_list = True) 
    82948 File
    82949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82950 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    82951 subregion, step) 
    82952 File
    82953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82954 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    82955 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    82956 File
    82957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82958 packages/chimerax/map/volume.py", line 1243, in
    82959 matrix_indices_to_xyz_transform 
    82960 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    82961 File
    82962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82963 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    82964 r = self.subregion(step, subregion) 
    82965 File
    82966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82967 packages/chimerax/map/volume.py", line 1558, in subregion 
    82968 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82969 AttributeError: 'NoneType' object has no attribute 'size' 
    82970  
    82971 AttributeError: 'NoneType' object has no attribute 'size' 
    82972  
    82973 File
    82974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82975 packages/chimerax/map/volume.py", line 1558, in subregion 
    82976 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    82977  
    82978 See log for complete Python traceback. 
    82979  
    82980 Traceback (most recent call last): 
    82981 File
    82982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82983 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    82984 drew = self.draw_new_frame() 
    82985 File
    82986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82987 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    82988 surface.update_clip_caps(view) 
    82989 File
    82990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82991 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    82992 subdivision = settings.clipping_cap_subdivision) 
    82993 File
    82994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82995 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    82996 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    82997 File
    82998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    82999 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83000 cm.set_geometry(varray, narray, tarray) 
    83001 File
    83002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83003 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83004 arv() 
    83005 File
    83006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83007 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83008 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83009 File
    83010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83011 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83012 s.vertex_colors = self.vertex_colors(report_stats) 
    83013 File
    83014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83015 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83016 values, outside = self.volume_values() 
    83017 File
    83018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83019 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83020 return self.offset_values(v, n, tf) 
    83021 File
    83022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83023 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83024 values, outside = self.vertex_values(v, xf) 
    83025 File
    83026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83027 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83028 out_of_bounds_list = True) 
    83029 File
    83030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83031 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83032 subregion, step) 
    83033 File
    83034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83035 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83036 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83037 File
    83038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83039 packages/chimerax/map/volume.py", line 1243, in
    83040 matrix_indices_to_xyz_transform 
    83041 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83042 File
    83043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83044 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83045 r = self.subregion(step, subregion) 
    83046 File
    83047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83048 packages/chimerax/map/volume.py", line 1558, in subregion 
    83049 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83050 AttributeError: 'NoneType' object has no attribute 'size' 
    83051  
    83052 AttributeError: 'NoneType' object has no attribute 'size' 
    83053  
    83054 File
    83055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83056 packages/chimerax/map/volume.py", line 1558, in subregion 
    83057 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83058  
    83059 See log for complete Python traceback. 
    83060  
    83061 Traceback (most recent call last): 
    83062 File
    83063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83064 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83065 drew = self.draw_new_frame() 
    83066 File
    83067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83068 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83069 surface.update_clip_caps(view) 
    83070 File
    83071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83072 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83073 subdivision = settings.clipping_cap_subdivision) 
    83074 File
    83075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83076 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83077 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83078 File
    83079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83080 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83081 cm.set_geometry(varray, narray, tarray) 
    83082 File
    83083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83084 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83085 arv() 
    83086 File
    83087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83088 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83089 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83090 File
    83091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83092 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83093 s.vertex_colors = self.vertex_colors(report_stats) 
    83094 File
    83095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83096 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83097 values, outside = self.volume_values() 
    83098 File
    83099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83100 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83101 return self.offset_values(v, n, tf) 
    83102 File
    83103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83104 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83105 values, outside = self.vertex_values(v, xf) 
    83106 File
    83107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83108 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83109 out_of_bounds_list = True) 
    83110 File
    83111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83112 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83113 subregion, step) 
    83114 File
    83115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83116 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83117 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83118 File
    83119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83120 packages/chimerax/map/volume.py", line 1243, in
    83121 matrix_indices_to_xyz_transform 
    83122 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83123 File
    83124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83125 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83126 r = self.subregion(step, subregion) 
    83127 File
    83128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83129 packages/chimerax/map/volume.py", line 1558, in subregion 
    83130 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83131 AttributeError: 'NoneType' object has no attribute 'size' 
    83132  
    83133 AttributeError: 'NoneType' object has no attribute 'size' 
    83134  
    83135 File
    83136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83137 packages/chimerax/map/volume.py", line 1558, in subregion 
    83138 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83139  
    83140 See log for complete Python traceback. 
    83141  
    83142 Traceback (most recent call last): 
    83143 File
    83144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83145 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83146 drew = self.draw_new_frame() 
    83147 File
    83148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83149 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83150 surface.update_clip_caps(view) 
    83151 File
    83152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83153 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83154 subdivision = settings.clipping_cap_subdivision) 
    83155 File
    83156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83157 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83158 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83159 File
    83160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83161 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83162 cm.set_geometry(varray, narray, tarray) 
    83163 File
    83164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83165 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83166 arv() 
    83167 File
    83168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83169 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83170 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83171 File
    83172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83173 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83174 s.vertex_colors = self.vertex_colors(report_stats) 
    83175 File
    83176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83177 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83178 values, outside = self.volume_values() 
    83179 File
    83180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83181 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83182 return self.offset_values(v, n, tf) 
    83183 File
    83184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83185 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83186 values, outside = self.vertex_values(v, xf) 
    83187 File
    83188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83189 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83190 out_of_bounds_list = True) 
    83191 File
    83192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83193 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83194 subregion, step) 
    83195 File
    83196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83197 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83198 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83199 File
    83200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83201 packages/chimerax/map/volume.py", line 1243, in
    83202 matrix_indices_to_xyz_transform 
    83203 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83204 File
    83205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83206 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83207 r = self.subregion(step, subregion) 
    83208 File
    83209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83210 packages/chimerax/map/volume.py", line 1558, in subregion 
    83211 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83212 AttributeError: 'NoneType' object has no attribute 'size' 
    83213  
    83214 AttributeError: 'NoneType' object has no attribute 'size' 
    83215  
    83216 File
    83217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83218 packages/chimerax/map/volume.py", line 1558, in subregion 
    83219 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83220  
    83221 See log for complete Python traceback. 
    83222  
    83223 Traceback (most recent call last): 
    83224 File
    83225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83226 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83227 drew = self.draw_new_frame() 
    83228 File
    83229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83230 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83231 surface.update_clip_caps(view) 
    83232 File
    83233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83234 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83235 subdivision = settings.clipping_cap_subdivision) 
    83236 File
    83237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83238 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83239 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83240 File
    83241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83242 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83243 cm.set_geometry(varray, narray, tarray) 
    83244 File
    83245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83246 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83247 arv() 
    83248 File
    83249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83250 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83251 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83252 File
    83253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83254 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83255 s.vertex_colors = self.vertex_colors(report_stats) 
    83256 File
    83257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83258 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83259 values, outside = self.volume_values() 
    83260 File
    83261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83262 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83263 return self.offset_values(v, n, tf) 
    83264 File
    83265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83266 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83267 values, outside = self.vertex_values(v, xf) 
    83268 File
    83269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83270 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83271 out_of_bounds_list = True) 
    83272 File
    83273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83274 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83275 subregion, step) 
    83276 File
    83277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83278 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83279 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83280 File
    83281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83282 packages/chimerax/map/volume.py", line 1243, in
    83283 matrix_indices_to_xyz_transform 
    83284 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83285 File
    83286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83287 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83288 r = self.subregion(step, subregion) 
    83289 File
    83290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83291 packages/chimerax/map/volume.py", line 1558, in subregion 
    83292 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83293 AttributeError: 'NoneType' object has no attribute 'size' 
    83294  
    83295 AttributeError: 'NoneType' object has no attribute 'size' 
    83296  
    83297 File
    83298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83299 packages/chimerax/map/volume.py", line 1558, in subregion 
    83300 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83301  
    83302 See log for complete Python traceback. 
    83303  
    83304 Traceback (most recent call last): 
    83305 File
    83306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83307 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83308 drew = self.draw_new_frame() 
    83309 File
    83310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83311 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83312 surface.update_clip_caps(view) 
    83313 File
    83314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83315 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83316 subdivision = settings.clipping_cap_subdivision) 
    83317 File
    83318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83319 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83320 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83321 File
    83322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83323 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83324 cm.set_geometry(varray, narray, tarray) 
    83325 File
    83326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83327 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83328 arv() 
    83329 File
    83330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83331 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83332 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83333 File
    83334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83335 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83336 s.vertex_colors = self.vertex_colors(report_stats) 
    83337 File
    83338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83339 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83340 values, outside = self.volume_values() 
    83341 File
    83342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83343 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83344 return self.offset_values(v, n, tf) 
    83345 File
    83346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83347 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83348 values, outside = self.vertex_values(v, xf) 
    83349 File
    83350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83351 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83352 out_of_bounds_list = True) 
    83353 File
    83354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83355 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83356 subregion, step) 
    83357 File
    83358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83359 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83360 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83361 File
    83362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83363 packages/chimerax/map/volume.py", line 1243, in
    83364 matrix_indices_to_xyz_transform 
    83365 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83366 File
    83367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83368 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83369 r = self.subregion(step, subregion) 
    83370 File
    83371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83372 packages/chimerax/map/volume.py", line 1558, in subregion 
    83373 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83374 AttributeError: 'NoneType' object has no attribute 'size' 
    83375  
    83376 AttributeError: 'NoneType' object has no attribute 'size' 
    83377  
    83378 File
    83379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83380 packages/chimerax/map/volume.py", line 1558, in subregion 
    83381 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83382  
    83383 See log for complete Python traceback. 
    83384  
    83385 Traceback (most recent call last): 
    83386 File
    83387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83388 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83389 drew = self.draw_new_frame() 
    83390 File
    83391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83392 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83393 surface.update_clip_caps(view) 
    83394 File
    83395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83396 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83397 subdivision = settings.clipping_cap_subdivision) 
    83398 File
    83399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83400 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83401 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83402 File
    83403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83404 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83405 cm.set_geometry(varray, narray, tarray) 
    83406 File
    83407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83408 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83409 arv() 
    83410 File
    83411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83412 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83413 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83414 File
    83415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83416 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83417 s.vertex_colors = self.vertex_colors(report_stats) 
    83418 File
    83419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83420 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83421 values, outside = self.volume_values() 
    83422 File
    83423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83424 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83425 return self.offset_values(v, n, tf) 
    83426 File
    83427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83428 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83429 values, outside = self.vertex_values(v, xf) 
    83430 File
    83431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83432 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83433 out_of_bounds_list = True) 
    83434 File
    83435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83436 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83437 subregion, step) 
    83438 File
    83439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83440 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83441 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83442 File
    83443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83444 packages/chimerax/map/volume.py", line 1243, in
    83445 matrix_indices_to_xyz_transform 
    83446 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83447 File
    83448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83449 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83450 r = self.subregion(step, subregion) 
    83451 File
    83452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83453 packages/chimerax/map/volume.py", line 1558, in subregion 
    83454 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83455 AttributeError: 'NoneType' object has no attribute 'size' 
    83456  
    83457 AttributeError: 'NoneType' object has no attribute 'size' 
    83458  
    83459 File
    83460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83461 packages/chimerax/map/volume.py", line 1558, in subregion 
    83462 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83463  
    83464 See log for complete Python traceback. 
    83465  
    83466 Traceback (most recent call last): 
    83467 File
    83468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83469 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83470 drew = self.draw_new_frame() 
    83471 File
    83472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83473 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83474 surface.update_clip_caps(view) 
    83475 File
    83476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83477 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83478 subdivision = settings.clipping_cap_subdivision) 
    83479 File
    83480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83481 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83482 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83483 File
    83484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83485 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83486 cm.set_geometry(varray, narray, tarray) 
    83487 File
    83488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83489 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83490 arv() 
    83491 File
    83492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83493 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83494 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83495 File
    83496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83497 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83498 s.vertex_colors = self.vertex_colors(report_stats) 
    83499 File
    83500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83501 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83502 values, outside = self.volume_values() 
    83503 File
    83504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83505 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83506 return self.offset_values(v, n, tf) 
    83507 File
    83508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83509 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83510 values, outside = self.vertex_values(v, xf) 
    83511 File
    83512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83513 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83514 out_of_bounds_list = True) 
    83515 File
    83516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83517 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83518 subregion, step) 
    83519 File
    83520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83521 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83522 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83523 File
    83524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83525 packages/chimerax/map/volume.py", line 1243, in
    83526 matrix_indices_to_xyz_transform 
    83527 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83528 File
    83529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83530 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83531 r = self.subregion(step, subregion) 
    83532 File
    83533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83534 packages/chimerax/map/volume.py", line 1558, in subregion 
    83535 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83536 AttributeError: 'NoneType' object has no attribute 'size' 
    83537  
    83538 AttributeError: 'NoneType' object has no attribute 'size' 
    83539  
    83540 File
    83541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83542 packages/chimerax/map/volume.py", line 1558, in subregion 
    83543 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83544  
    83545 See log for complete Python traceback. 
    83546  
    83547 Traceback (most recent call last): 
    83548 File
    83549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83550 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83551 drew = self.draw_new_frame() 
    83552 File
    83553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83554 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83555 surface.update_clip_caps(view) 
    83556 File
    83557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83558 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83559 subdivision = settings.clipping_cap_subdivision) 
    83560 File
    83561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83562 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83563 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83564 File
    83565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83566 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83567 cm.set_geometry(varray, narray, tarray) 
    83568 File
    83569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83570 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83571 arv() 
    83572 File
    83573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83574 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83575 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83576 File
    83577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83578 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83579 s.vertex_colors = self.vertex_colors(report_stats) 
    83580 File
    83581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83582 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83583 values, outside = self.volume_values() 
    83584 File
    83585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83586 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83587 return self.offset_values(v, n, tf) 
    83588 File
    83589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83590 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83591 values, outside = self.vertex_values(v, xf) 
    83592 File
    83593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83594 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83595 out_of_bounds_list = True) 
    83596 File
    83597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83598 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83599 subregion, step) 
    83600 File
    83601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83602 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83603 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83604 File
    83605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83606 packages/chimerax/map/volume.py", line 1243, in
    83607 matrix_indices_to_xyz_transform 
    83608 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83609 File
    83610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83611 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83612 r = self.subregion(step, subregion) 
    83613 File
    83614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83615 packages/chimerax/map/volume.py", line 1558, in subregion 
    83616 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83617 AttributeError: 'NoneType' object has no attribute 'size' 
    83618  
    83619 AttributeError: 'NoneType' object has no attribute 'size' 
    83620  
    83621 File
    83622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83623 packages/chimerax/map/volume.py", line 1558, in subregion 
    83624 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83625  
    83626 See log for complete Python traceback. 
    83627  
    83628 Traceback (most recent call last): 
    83629 File
    83630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83631 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83632 drew = self.draw_new_frame() 
    83633 File
    83634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83635 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83636 surface.update_clip_caps(view) 
    83637 File
    83638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83639 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83640 subdivision = settings.clipping_cap_subdivision) 
    83641 File
    83642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83643 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83644 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83645 File
    83646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83647 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83648 cm.set_geometry(varray, narray, tarray) 
    83649 File
    83650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83651 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83652 arv() 
    83653 File
    83654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83655 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83656 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83657 File
    83658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83659 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83660 s.vertex_colors = self.vertex_colors(report_stats) 
    83661 File
    83662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83663 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83664 values, outside = self.volume_values() 
    83665 File
    83666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83667 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83668 return self.offset_values(v, n, tf) 
    83669 File
    83670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83671 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83672 values, outside = self.vertex_values(v, xf) 
    83673 File
    83674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83675 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83676 out_of_bounds_list = True) 
    83677 File
    83678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83679 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83680 subregion, step) 
    83681 File
    83682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83683 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83684 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83685 File
    83686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83687 packages/chimerax/map/volume.py", line 1243, in
    83688 matrix_indices_to_xyz_transform 
    83689 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83690 File
    83691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83692 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83693 r = self.subregion(step, subregion) 
    83694 File
    83695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83696 packages/chimerax/map/volume.py", line 1558, in subregion 
    83697 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83698 AttributeError: 'NoneType' object has no attribute 'size' 
    83699  
    83700 AttributeError: 'NoneType' object has no attribute 'size' 
    83701  
    83702 File
    83703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83704 packages/chimerax/map/volume.py", line 1558, in subregion 
    83705 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83706  
    83707 See log for complete Python traceback. 
    83708  
    83709 Traceback (most recent call last): 
    83710 File
    83711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83712 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83713 drew = self.draw_new_frame() 
    83714 File
    83715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83716 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83717 surface.update_clip_caps(view) 
    83718 File
    83719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83720 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83721 subdivision = settings.clipping_cap_subdivision) 
    83722 File
    83723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83724 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83725 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83726 File
    83727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83728 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83729 cm.set_geometry(varray, narray, tarray) 
    83730 File
    83731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83732 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83733 arv() 
    83734 File
    83735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83736 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83737 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83738 File
    83739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83740 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83741 s.vertex_colors = self.vertex_colors(report_stats) 
    83742 File
    83743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83744 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83745 values, outside = self.volume_values() 
    83746 File
    83747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83748 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83749 return self.offset_values(v, n, tf) 
    83750 File
    83751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83752 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83753 values, outside = self.vertex_values(v, xf) 
    83754 File
    83755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83756 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83757 out_of_bounds_list = True) 
    83758 File
    83759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83760 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83761 subregion, step) 
    83762 File
    83763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83764 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83765 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83766 File
    83767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83768 packages/chimerax/map/volume.py", line 1243, in
    83769 matrix_indices_to_xyz_transform 
    83770 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83771 File
    83772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83773 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83774 r = self.subregion(step, subregion) 
    83775 File
    83776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83777 packages/chimerax/map/volume.py", line 1558, in subregion 
    83778 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83779 AttributeError: 'NoneType' object has no attribute 'size' 
    83780  
    83781 AttributeError: 'NoneType' object has no attribute 'size' 
    83782  
    83783 File
    83784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83785 packages/chimerax/map/volume.py", line 1558, in subregion 
    83786 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83787  
    83788 See log for complete Python traceback. 
    83789  
    83790 Traceback (most recent call last): 
    83791 File
    83792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83793 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83794 drew = self.draw_new_frame() 
    83795 File
    83796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83797 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83798 surface.update_clip_caps(view) 
    83799 File
    83800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83801 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83802 subdivision = settings.clipping_cap_subdivision) 
    83803 File
    83804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83805 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83806 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83807 File
    83808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83809 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83810 cm.set_geometry(varray, narray, tarray) 
    83811 File
    83812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83813 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83814 arv() 
    83815 File
    83816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83817 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83818 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83819 File
    83820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83821 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83822 s.vertex_colors = self.vertex_colors(report_stats) 
    83823 File
    83824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83825 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83826 values, outside = self.volume_values() 
    83827 File
    83828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83829 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83830 return self.offset_values(v, n, tf) 
    83831 File
    83832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83833 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83834 values, outside = self.vertex_values(v, xf) 
    83835 File
    83836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83837 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83838 out_of_bounds_list = True) 
    83839 File
    83840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83841 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83842 subregion, step) 
    83843 File
    83844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83845 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83846 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83847 File
    83848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83849 packages/chimerax/map/volume.py", line 1243, in
    83850 matrix_indices_to_xyz_transform 
    83851 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83852 File
    83853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83854 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83855 r = self.subregion(step, subregion) 
    83856 File
    83857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83858 packages/chimerax/map/volume.py", line 1558, in subregion 
    83859 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83860 AttributeError: 'NoneType' object has no attribute 'size' 
    83861  
    83862 AttributeError: 'NoneType' object has no attribute 'size' 
    83863  
    83864 File
    83865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83866 packages/chimerax/map/volume.py", line 1558, in subregion 
    83867 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83868  
    83869 See log for complete Python traceback. 
    83870  
    83871 Traceback (most recent call last): 
    83872 File
    83873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83874 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83875 drew = self.draw_new_frame() 
    83876 File
    83877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83878 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83879 surface.update_clip_caps(view) 
    83880 File
    83881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83882 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83883 subdivision = settings.clipping_cap_subdivision) 
    83884 File
    83885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83886 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83887 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83888 File
    83889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83890 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83891 cm.set_geometry(varray, narray, tarray) 
    83892 File
    83893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83894 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83895 arv() 
    83896 File
    83897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83898 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83899 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83900 File
    83901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83902 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83903 s.vertex_colors = self.vertex_colors(report_stats) 
    83904 File
    83905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83906 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83907 values, outside = self.volume_values() 
    83908 File
    83909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83910 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83911 return self.offset_values(v, n, tf) 
    83912 File
    83913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83914 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83915 values, outside = self.vertex_values(v, xf) 
    83916 File
    83917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83918 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    83919 out_of_bounds_list = True) 
    83920 File
    83921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83922 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    83923 subregion, step) 
    83924 File
    83925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83926 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    83927 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    83928 File
    83929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83930 packages/chimerax/map/volume.py", line 1243, in
    83931 matrix_indices_to_xyz_transform 
    83932 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    83933 File
    83934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83935 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    83936 r = self.subregion(step, subregion) 
    83937 File
    83938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83939 packages/chimerax/map/volume.py", line 1558, in subregion 
    83940 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83941 AttributeError: 'NoneType' object has no attribute 'size' 
    83942  
    83943 AttributeError: 'NoneType' object has no attribute 'size' 
    83944  
    83945 File
    83946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83947 packages/chimerax/map/volume.py", line 1558, in subregion 
    83948 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    83949  
    83950 See log for complete Python traceback. 
    83951  
    83952 Traceback (most recent call last): 
    83953 File
    83954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83955 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    83956 drew = self.draw_new_frame() 
    83957 File
    83958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83959 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    83960 surface.update_clip_caps(view) 
    83961 File
    83962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83963 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    83964 subdivision = settings.clipping_cap_subdivision) 
    83965 File
    83966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83967 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    83968 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    83969 File
    83970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83971 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    83972 cm.set_geometry(varray, narray, tarray) 
    83973 File
    83974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83975 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    83976 arv() 
    83977 File
    83978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83979 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    83980 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    83981 File
    83982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83983 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    83984 s.vertex_colors = self.vertex_colors(report_stats) 
    83985 File
    83986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83987 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    83988 values, outside = self.volume_values() 
    83989 File
    83990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83991 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    83992 return self.offset_values(v, n, tf) 
    83993 File
    83994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83995 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    83996 values, outside = self.vertex_values(v, xf) 
    83997 File
    83998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    83999 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84000 out_of_bounds_list = True) 
    84001 File
    84002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84003 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84004 subregion, step) 
    84005 File
    84006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84007 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84008 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84009 File
    84010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84011 packages/chimerax/map/volume.py", line 1243, in
    84012 matrix_indices_to_xyz_transform 
    84013 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84014 File
    84015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84016 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84017 r = self.subregion(step, subregion) 
    84018 File
    84019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84020 packages/chimerax/map/volume.py", line 1558, in subregion 
    84021 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84022 AttributeError: 'NoneType' object has no attribute 'size' 
    84023  
    84024 AttributeError: 'NoneType' object has no attribute 'size' 
    84025  
    84026 File
    84027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84028 packages/chimerax/map/volume.py", line 1558, in subregion 
    84029 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84030  
    84031 See log for complete Python traceback. 
    84032  
    84033 Traceback (most recent call last): 
    84034 File
    84035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84036 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84037 drew = self.draw_new_frame() 
    84038 File
    84039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84040 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84041 surface.update_clip_caps(view) 
    84042 File
    84043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84044 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84045 subdivision = settings.clipping_cap_subdivision) 
    84046 File
    84047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84048 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84049 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84050 File
    84051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84052 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84053 cm.set_geometry(varray, narray, tarray) 
    84054 File
    84055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84056 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84057 arv() 
    84058 File
    84059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84060 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84061 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84062 File
    84063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84064 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84065 s.vertex_colors = self.vertex_colors(report_stats) 
    84066 File
    84067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84068 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84069 values, outside = self.volume_values() 
    84070 File
    84071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84072 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84073 return self.offset_values(v, n, tf) 
    84074 File
    84075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84076 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84077 values, outside = self.vertex_values(v, xf) 
    84078 File
    84079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84080 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84081 out_of_bounds_list = True) 
    84082 File
    84083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84084 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84085 subregion, step) 
    84086 File
    84087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84088 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84089 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84090 File
    84091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84092 packages/chimerax/map/volume.py", line 1243, in
    84093 matrix_indices_to_xyz_transform 
    84094 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84095 File
    84096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84097 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84098 r = self.subregion(step, subregion) 
    84099 File
    84100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84101 packages/chimerax/map/volume.py", line 1558, in subregion 
    84102 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84103 AttributeError: 'NoneType' object has no attribute 'size' 
    84104  
    84105 AttributeError: 'NoneType' object has no attribute 'size' 
    84106  
    84107 File
    84108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84109 packages/chimerax/map/volume.py", line 1558, in subregion 
    84110 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84111  
    84112 See log for complete Python traceback. 
    84113  
    84114 Traceback (most recent call last): 
    84115 File
    84116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84117 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84118 drew = self.draw_new_frame() 
    84119 File
    84120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84121 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84122 surface.update_clip_caps(view) 
    84123 File
    84124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84125 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84126 subdivision = settings.clipping_cap_subdivision) 
    84127 File
    84128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84129 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84130 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84131 File
    84132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84133 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84134 cm.set_geometry(varray, narray, tarray) 
    84135 File
    84136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84137 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84138 arv() 
    84139 File
    84140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84141 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84142 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84143 File
    84144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84145 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84146 s.vertex_colors = self.vertex_colors(report_stats) 
    84147 File
    84148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84149 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84150 values, outside = self.volume_values() 
    84151 File
    84152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84153 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84154 return self.offset_values(v, n, tf) 
    84155 File
    84156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84157 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84158 values, outside = self.vertex_values(v, xf) 
    84159 File
    84160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84161 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84162 out_of_bounds_list = True) 
    84163 File
    84164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84165 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84166 subregion, step) 
    84167 File
    84168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84169 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84170 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84171 File
    84172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84173 packages/chimerax/map/volume.py", line 1243, in
    84174 matrix_indices_to_xyz_transform 
    84175 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84176 File
    84177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84178 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84179 r = self.subregion(step, subregion) 
    84180 File
    84181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84182 packages/chimerax/map/volume.py", line 1558, in subregion 
    84183 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84184 AttributeError: 'NoneType' object has no attribute 'size' 
    84185  
    84186 AttributeError: 'NoneType' object has no attribute 'size' 
    84187  
    84188 File
    84189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84190 packages/chimerax/map/volume.py", line 1558, in subregion 
    84191 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84192  
    84193 See log for complete Python traceback. 
    84194  
    84195 Traceback (most recent call last): 
    84196 File
    84197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84198 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84199 drew = self.draw_new_frame() 
    84200 File
    84201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84202 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84203 surface.update_clip_caps(view) 
    84204 File
    84205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84206 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84207 subdivision = settings.clipping_cap_subdivision) 
    84208 File
    84209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84210 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84211 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84212 File
    84213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84214 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84215 cm.set_geometry(varray, narray, tarray) 
    84216 File
    84217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84218 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84219 arv() 
    84220 File
    84221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84222 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84223 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84224 File
    84225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84226 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84227 s.vertex_colors = self.vertex_colors(report_stats) 
    84228 File
    84229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84230 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84231 values, outside = self.volume_values() 
    84232 File
    84233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84234 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84235 return self.offset_values(v, n, tf) 
    84236 File
    84237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84238 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84239 values, outside = self.vertex_values(v, xf) 
    84240 File
    84241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84242 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84243 out_of_bounds_list = True) 
    84244 File
    84245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84246 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84247 subregion, step) 
    84248 File
    84249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84250 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84251 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84252 File
    84253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84254 packages/chimerax/map/volume.py", line 1243, in
    84255 matrix_indices_to_xyz_transform 
    84256 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84257 File
    84258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84259 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84260 r = self.subregion(step, subregion) 
    84261 File
    84262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84263 packages/chimerax/map/volume.py", line 1558, in subregion 
    84264 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84265 AttributeError: 'NoneType' object has no attribute 'size' 
    84266  
    84267 AttributeError: 'NoneType' object has no attribute 'size' 
    84268  
    84269 File
    84270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84271 packages/chimerax/map/volume.py", line 1558, in subregion 
    84272 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84273  
    84274 See log for complete Python traceback. 
    84275  
    84276 Traceback (most recent call last): 
    84277 File
    84278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84279 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84280 drew = self.draw_new_frame() 
    84281 File
    84282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84283 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84284 surface.update_clip_caps(view) 
    84285 File
    84286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84287 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84288 subdivision = settings.clipping_cap_subdivision) 
    84289 File
    84290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84291 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84292 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84293 File
    84294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84295 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84296 cm.set_geometry(varray, narray, tarray) 
    84297 File
    84298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84299 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84300 arv() 
    84301 File
    84302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84303 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84304 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84305 File
    84306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84307 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84308 s.vertex_colors = self.vertex_colors(report_stats) 
    84309 File
    84310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84311 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84312 values, outside = self.volume_values() 
    84313 File
    84314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84315 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84316 return self.offset_values(v, n, tf) 
    84317 File
    84318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84319 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84320 values, outside = self.vertex_values(v, xf) 
    84321 File
    84322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84323 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84324 out_of_bounds_list = True) 
    84325 File
    84326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84327 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84328 subregion, step) 
    84329 File
    84330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84331 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84332 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84333 File
    84334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84335 packages/chimerax/map/volume.py", line 1243, in
    84336 matrix_indices_to_xyz_transform 
    84337 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84338 File
    84339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84340 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84341 r = self.subregion(step, subregion) 
    84342 File
    84343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84344 packages/chimerax/map/volume.py", line 1558, in subregion 
    84345 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84346 AttributeError: 'NoneType' object has no attribute 'size' 
    84347  
    84348 AttributeError: 'NoneType' object has no attribute 'size' 
    84349  
    84350 File
    84351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84352 packages/chimerax/map/volume.py", line 1558, in subregion 
    84353 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84354  
    84355 See log for complete Python traceback. 
    84356  
    84357 Traceback (most recent call last): 
    84358 File
    84359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84360 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84361 drew = self.draw_new_frame() 
    84362 File
    84363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84364 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84365 surface.update_clip_caps(view) 
    84366 File
    84367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84368 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84369 subdivision = settings.clipping_cap_subdivision) 
    84370 File
    84371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84372 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84373 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84374 File
    84375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84376 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84377 cm.set_geometry(varray, narray, tarray) 
    84378 File
    84379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84380 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84381 arv() 
    84382 File
    84383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84384 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84385 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84386 File
    84387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84388 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84389 s.vertex_colors = self.vertex_colors(report_stats) 
    84390 File
    84391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84392 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84393 values, outside = self.volume_values() 
    84394 File
    84395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84396 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84397 return self.offset_values(v, n, tf) 
    84398 File
    84399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84400 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84401 values, outside = self.vertex_values(v, xf) 
    84402 File
    84403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84404 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84405 out_of_bounds_list = True) 
    84406 File
    84407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84408 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84409 subregion, step) 
    84410 File
    84411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84412 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84413 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84414 File
    84415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84416 packages/chimerax/map/volume.py", line 1243, in
    84417 matrix_indices_to_xyz_transform 
    84418 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84419 File
    84420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84421 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84422 r = self.subregion(step, subregion) 
    84423 File
    84424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84425 packages/chimerax/map/volume.py", line 1558, in subregion 
    84426 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84427 AttributeError: 'NoneType' object has no attribute 'size' 
    84428  
    84429 AttributeError: 'NoneType' object has no attribute 'size' 
    84430  
    84431 File
    84432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84433 packages/chimerax/map/volume.py", line 1558, in subregion 
    84434 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84435  
    84436 See log for complete Python traceback. 
    84437  
    84438 Traceback (most recent call last): 
    84439 File
    84440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84441 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84442 drew = self.draw_new_frame() 
    84443 File
    84444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84445 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84446 surface.update_clip_caps(view) 
    84447 File
    84448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84449 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84450 subdivision = settings.clipping_cap_subdivision) 
    84451 File
    84452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84453 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84454 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84455 File
    84456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84457 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84458 cm.set_geometry(varray, narray, tarray) 
    84459 File
    84460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84461 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84462 arv() 
    84463 File
    84464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84465 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84466 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84467 File
    84468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84469 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84470 s.vertex_colors = self.vertex_colors(report_stats) 
    84471 File
    84472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84473 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84474 values, outside = self.volume_values() 
    84475 File
    84476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84477 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84478 return self.offset_values(v, n, tf) 
    84479 File
    84480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84481 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84482 values, outside = self.vertex_values(v, xf) 
    84483 File
    84484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84485 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84486 out_of_bounds_list = True) 
    84487 File
    84488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84489 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84490 subregion, step) 
    84491 File
    84492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84493 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84494 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84495 File
    84496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84497 packages/chimerax/map/volume.py", line 1243, in
    84498 matrix_indices_to_xyz_transform 
    84499 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84500 File
    84501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84502 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84503 r = self.subregion(step, subregion) 
    84504 File
    84505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84506 packages/chimerax/map/volume.py", line 1558, in subregion 
    84507 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84508 AttributeError: 'NoneType' object has no attribute 'size' 
    84509  
    84510 AttributeError: 'NoneType' object has no attribute 'size' 
    84511  
    84512 File
    84513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84514 packages/chimerax/map/volume.py", line 1558, in subregion 
    84515 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84516  
    84517 See log for complete Python traceback. 
    84518  
    84519 Traceback (most recent call last): 
    84520 File
    84521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84522 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84523 drew = self.draw_new_frame() 
    84524 File
    84525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84526 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84527 surface.update_clip_caps(view) 
    84528 File
    84529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84530 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84531 subdivision = settings.clipping_cap_subdivision) 
    84532 File
    84533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84534 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84535 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84536 File
    84537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84538 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84539 cm.set_geometry(varray, narray, tarray) 
    84540 File
    84541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84542 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84543 arv() 
    84544 File
    84545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84546 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84547 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84548 File
    84549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84550 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84551 s.vertex_colors = self.vertex_colors(report_stats) 
    84552 File
    84553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84554 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84555 values, outside = self.volume_values() 
    84556 File
    84557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84558 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84559 return self.offset_values(v, n, tf) 
    84560 File
    84561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84562 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84563 values, outside = self.vertex_values(v, xf) 
    84564 File
    84565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84566 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84567 out_of_bounds_list = True) 
    84568 File
    84569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84570 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84571 subregion, step) 
    84572 File
    84573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84574 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84575 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84576 File
    84577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84578 packages/chimerax/map/volume.py", line 1243, in
    84579 matrix_indices_to_xyz_transform 
    84580 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84581 File
    84582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84583 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84584 r = self.subregion(step, subregion) 
    84585 File
    84586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84587 packages/chimerax/map/volume.py", line 1558, in subregion 
    84588 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84589 AttributeError: 'NoneType' object has no attribute 'size' 
    84590  
    84591 AttributeError: 'NoneType' object has no attribute 'size' 
    84592  
    84593 File
    84594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84595 packages/chimerax/map/volume.py", line 1558, in subregion 
    84596 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84597  
    84598 See log for complete Python traceback. 
    84599  
    84600 Traceback (most recent call last): 
    84601 File
    84602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84603 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84604 drew = self.draw_new_frame() 
    84605 File
    84606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84607 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84608 surface.update_clip_caps(view) 
    84609 File
    84610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84611 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84612 subdivision = settings.clipping_cap_subdivision) 
    84613 File
    84614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84615 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84616 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84617 File
    84618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84619 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84620 cm.set_geometry(varray, narray, tarray) 
    84621 File
    84622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84623 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84624 arv() 
    84625 File
    84626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84627 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84628 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84629 File
    84630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84631 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84632 s.vertex_colors = self.vertex_colors(report_stats) 
    84633 File
    84634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84635 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84636 values, outside = self.volume_values() 
    84637 File
    84638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84639 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84640 return self.offset_values(v, n, tf) 
    84641 File
    84642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84643 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84644 values, outside = self.vertex_values(v, xf) 
    84645 File
    84646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84647 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84648 out_of_bounds_list = True) 
    84649 File
    84650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84651 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84652 subregion, step) 
    84653 File
    84654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84655 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84656 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84657 File
    84658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84659 packages/chimerax/map/volume.py", line 1243, in
    84660 matrix_indices_to_xyz_transform 
    84661 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84662 File
    84663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84664 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84665 r = self.subregion(step, subregion) 
    84666 File
    84667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84668 packages/chimerax/map/volume.py", line 1558, in subregion 
    84669 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84670 AttributeError: 'NoneType' object has no attribute 'size' 
    84671  
    84672 AttributeError: 'NoneType' object has no attribute 'size' 
    84673  
    84674 File
    84675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84676 packages/chimerax/map/volume.py", line 1558, in subregion 
    84677 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84678  
    84679 See log for complete Python traceback. 
    84680  
    84681 Traceback (most recent call last): 
    84682 File
    84683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84684 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84685 drew = self.draw_new_frame() 
    84686 File
    84687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84688 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84689 surface.update_clip_caps(view) 
    84690 File
    84691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84692 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84693 subdivision = settings.clipping_cap_subdivision) 
    84694 File
    84695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84696 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84697 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84698 File
    84699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84700 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84701 cm.set_geometry(varray, narray, tarray) 
    84702 File
    84703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84704 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84705 arv() 
    84706 File
    84707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84708 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84709 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84710 File
    84711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84712 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84713 s.vertex_colors = self.vertex_colors(report_stats) 
    84714 File
    84715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84716 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84717 values, outside = self.volume_values() 
    84718 File
    84719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84720 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84721 return self.offset_values(v, n, tf) 
    84722 File
    84723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84724 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84725 values, outside = self.vertex_values(v, xf) 
    84726 File
    84727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84728 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84729 out_of_bounds_list = True) 
    84730 File
    84731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84732 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84733 subregion, step) 
    84734 File
    84735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84736 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84737 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84738 File
    84739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84740 packages/chimerax/map/volume.py", line 1243, in
    84741 matrix_indices_to_xyz_transform 
    84742 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84743 File
    84744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84745 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84746 r = self.subregion(step, subregion) 
    84747 File
    84748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84749 packages/chimerax/map/volume.py", line 1558, in subregion 
    84750 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84751 AttributeError: 'NoneType' object has no attribute 'size' 
    84752  
    84753 AttributeError: 'NoneType' object has no attribute 'size' 
    84754  
    84755 File
    84756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84757 packages/chimerax/map/volume.py", line 1558, in subregion 
    84758 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84759  
    84760 See log for complete Python traceback. 
    84761  
    84762 Traceback (most recent call last): 
    84763 File
    84764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84765 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84766 drew = self.draw_new_frame() 
    84767 File
    84768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84769 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84770 surface.update_clip_caps(view) 
    84771 File
    84772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84773 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84774 subdivision = settings.clipping_cap_subdivision) 
    84775 File
    84776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84777 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84778 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84779 File
    84780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84781 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84782 cm.set_geometry(varray, narray, tarray) 
    84783 File
    84784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84785 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84786 arv() 
    84787 File
    84788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84789 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84790 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84791 File
    84792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84793 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84794 s.vertex_colors = self.vertex_colors(report_stats) 
    84795 File
    84796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84797 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84798 values, outside = self.volume_values() 
    84799 File
    84800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84801 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84802 return self.offset_values(v, n, tf) 
    84803 File
    84804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84805 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84806 values, outside = self.vertex_values(v, xf) 
    84807 File
    84808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84809 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84810 out_of_bounds_list = True) 
    84811 File
    84812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84813 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84814 subregion, step) 
    84815 File
    84816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84817 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84818 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84819 File
    84820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84821 packages/chimerax/map/volume.py", line 1243, in
    84822 matrix_indices_to_xyz_transform 
    84823 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84824 File
    84825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84826 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84827 r = self.subregion(step, subregion) 
    84828 File
    84829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84830 packages/chimerax/map/volume.py", line 1558, in subregion 
    84831 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84832 AttributeError: 'NoneType' object has no attribute 'size' 
    84833  
    84834 AttributeError: 'NoneType' object has no attribute 'size' 
    84835  
    84836 File
    84837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84838 packages/chimerax/map/volume.py", line 1558, in subregion 
    84839 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84840  
    84841 See log for complete Python traceback. 
    84842  
    84843 Traceback (most recent call last): 
    84844 File
    84845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84846 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84847 drew = self.draw_new_frame() 
    84848 File
    84849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84850 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84851 surface.update_clip_caps(view) 
    84852 File
    84853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84854 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84855 subdivision = settings.clipping_cap_subdivision) 
    84856 File
    84857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84858 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84859 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84860 File
    84861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84862 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84863 cm.set_geometry(varray, narray, tarray) 
    84864 File
    84865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84866 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84867 arv() 
    84868 File
    84869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84870 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84871 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84872 File
    84873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84874 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84875 s.vertex_colors = self.vertex_colors(report_stats) 
    84876 File
    84877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84878 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84879 values, outside = self.volume_values() 
    84880 File
    84881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84882 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84883 return self.offset_values(v, n, tf) 
    84884 File
    84885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84886 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84887 values, outside = self.vertex_values(v, xf) 
    84888 File
    84889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84890 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84891 out_of_bounds_list = True) 
    84892 File
    84893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84894 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84895 subregion, step) 
    84896 File
    84897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84898 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84899 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84900 File
    84901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84902 packages/chimerax/map/volume.py", line 1243, in
    84903 matrix_indices_to_xyz_transform 
    84904 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84905 File
    84906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84907 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84908 r = self.subregion(step, subregion) 
    84909 File
    84910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84911 packages/chimerax/map/volume.py", line 1558, in subregion 
    84912 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84913 AttributeError: 'NoneType' object has no attribute 'size' 
    84914  
    84915 AttributeError: 'NoneType' object has no attribute 'size' 
    84916  
    84917 File
    84918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84919 packages/chimerax/map/volume.py", line 1558, in subregion 
    84920 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84921  
    84922 See log for complete Python traceback. 
    84923  
    84924 Traceback (most recent call last): 
    84925 File
    84926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84927 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    84928 drew = self.draw_new_frame() 
    84929 File
    84930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84931 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    84932 surface.update_clip_caps(view) 
    84933 File
    84934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84935 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    84936 subdivision = settings.clipping_cap_subdivision) 
    84937 File
    84938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84939 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    84940 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    84941 File
    84942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84943 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    84944 cm.set_geometry(varray, narray, tarray) 
    84945 File
    84946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84947 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    84948 arv() 
    84949 File
    84950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84951 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    84952 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    84953 File
    84954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84955 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    84956 s.vertex_colors = self.vertex_colors(report_stats) 
    84957 File
    84958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84959 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    84960 values, outside = self.volume_values() 
    84961 File
    84962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84963 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    84964 return self.offset_values(v, n, tf) 
    84965 File
    84966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84967 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    84968 values, outside = self.vertex_values(v, xf) 
    84969 File
    84970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84971 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    84972 out_of_bounds_list = True) 
    84973 File
    84974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84975 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    84976 subregion, step) 
    84977 File
    84978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84979 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    84980 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    84981 File
    84982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84983 packages/chimerax/map/volume.py", line 1243, in
    84984 matrix_indices_to_xyz_transform 
    84985 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    84986 File
    84987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84988 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    84989 r = self.subregion(step, subregion) 
    84990 File
    84991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    84992 packages/chimerax/map/volume.py", line 1558, in subregion 
    84993 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    84994 AttributeError: 'NoneType' object has no attribute 'size' 
    84995  
    84996 AttributeError: 'NoneType' object has no attribute 'size' 
    84997  
    84998 File
    84999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85000 packages/chimerax/map/volume.py", line 1558, in subregion 
    85001 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85002  
    85003 See log for complete Python traceback. 
    85004  
    85005 Traceback (most recent call last): 
    85006 File
    85007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85008 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85009 drew = self.draw_new_frame() 
    85010 File
    85011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85012 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85013 surface.update_clip_caps(view) 
    85014 File
    85015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85016 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85017 subdivision = settings.clipping_cap_subdivision) 
    85018 File
    85019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85020 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85021 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85022 File
    85023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85024 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85025 cm.set_geometry(varray, narray, tarray) 
    85026 File
    85027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85028 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85029 arv() 
    85030 File
    85031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85032 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85033 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85034 File
    85035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85036 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85037 s.vertex_colors = self.vertex_colors(report_stats) 
    85038 File
    85039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85040 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85041 values, outside = self.volume_values() 
    85042 File
    85043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85044 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85045 return self.offset_values(v, n, tf) 
    85046 File
    85047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85048 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85049 values, outside = self.vertex_values(v, xf) 
    85050 File
    85051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85052 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85053 out_of_bounds_list = True) 
    85054 File
    85055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85056 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85057 subregion, step) 
    85058 File
    85059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85060 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85061 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85062 File
    85063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85064 packages/chimerax/map/volume.py", line 1243, in
    85065 matrix_indices_to_xyz_transform 
    85066 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85067 File
    85068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85069 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85070 r = self.subregion(step, subregion) 
    85071 File
    85072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85073 packages/chimerax/map/volume.py", line 1558, in subregion 
    85074 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85075 AttributeError: 'NoneType' object has no attribute 'size' 
    85076  
    85077 AttributeError: 'NoneType' object has no attribute 'size' 
    85078  
    85079 File
    85080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85081 packages/chimerax/map/volume.py", line 1558, in subregion 
    85082 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85083  
    85084 See log for complete Python traceback. 
    85085  
    85086 Traceback (most recent call last): 
    85087 File
    85088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85089 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85090 drew = self.draw_new_frame() 
    85091 File
    85092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85093 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85094 surface.update_clip_caps(view) 
    85095 File
    85096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85097 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85098 subdivision = settings.clipping_cap_subdivision) 
    85099 File
    85100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85101 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85102 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85103 File
    85104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85105 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85106 cm.set_geometry(varray, narray, tarray) 
    85107 File
    85108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85109 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85110 arv() 
    85111 File
    85112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85113 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85114 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85115 File
    85116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85117 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85118 s.vertex_colors = self.vertex_colors(report_stats) 
    85119 File
    85120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85121 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85122 values, outside = self.volume_values() 
    85123 File
    85124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85125 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85126 return self.offset_values(v, n, tf) 
    85127 File
    85128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85129 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85130 values, outside = self.vertex_values(v, xf) 
    85131 File
    85132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85133 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85134 out_of_bounds_list = True) 
    85135 File
    85136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85137 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85138 subregion, step) 
    85139 File
    85140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85141 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85142 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85143 File
    85144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85145 packages/chimerax/map/volume.py", line 1243, in
    85146 matrix_indices_to_xyz_transform 
    85147 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85148 File
    85149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85150 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85151 r = self.subregion(step, subregion) 
    85152 File
    85153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85154 packages/chimerax/map/volume.py", line 1558, in subregion 
    85155 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85156 AttributeError: 'NoneType' object has no attribute 'size' 
    85157  
    85158 AttributeError: 'NoneType' object has no attribute 'size' 
    85159  
    85160 File
    85161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85162 packages/chimerax/map/volume.py", line 1558, in subregion 
    85163 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85164  
    85165 See log for complete Python traceback. 
    85166  
    85167 Traceback (most recent call last): 
    85168 File
    85169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85170 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85171 drew = self.draw_new_frame() 
    85172 File
    85173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85174 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85175 surface.update_clip_caps(view) 
    85176 File
    85177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85178 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85179 subdivision = settings.clipping_cap_subdivision) 
    85180 File
    85181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85182 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85183 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85184 File
    85185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85186 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85187 cm.set_geometry(varray, narray, tarray) 
    85188 File
    85189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85190 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85191 arv() 
    85192 File
    85193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85194 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85195 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85196 File
    85197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85198 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85199 s.vertex_colors = self.vertex_colors(report_stats) 
    85200 File
    85201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85202 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85203 values, outside = self.volume_values() 
    85204 File
    85205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85206 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85207 return self.offset_values(v, n, tf) 
    85208 File
    85209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85210 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85211 values, outside = self.vertex_values(v, xf) 
    85212 File
    85213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85214 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85215 out_of_bounds_list = True) 
    85216 File
    85217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85218 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85219 subregion, step) 
    85220 File
    85221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85222 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85223 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85224 File
    85225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85226 packages/chimerax/map/volume.py", line 1243, in
    85227 matrix_indices_to_xyz_transform 
    85228 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85229 File
    85230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85231 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85232 r = self.subregion(step, subregion) 
    85233 File
    85234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85235 packages/chimerax/map/volume.py", line 1558, in subregion 
    85236 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85237 AttributeError: 'NoneType' object has no attribute 'size' 
    85238  
    85239 AttributeError: 'NoneType' object has no attribute 'size' 
    85240  
    85241 File
    85242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85243 packages/chimerax/map/volume.py", line 1558, in subregion 
    85244 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85245  
    85246 See log for complete Python traceback. 
    85247  
    85248 Traceback (most recent call last): 
    85249 File
    85250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85251 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85252 drew = self.draw_new_frame() 
    85253 File
    85254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85255 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85256 surface.update_clip_caps(view) 
    85257 File
    85258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85259 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85260 subdivision = settings.clipping_cap_subdivision) 
    85261 File
    85262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85263 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85264 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85265 File
    85266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85267 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85268 cm.set_geometry(varray, narray, tarray) 
    85269 File
    85270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85271 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85272 arv() 
    85273 File
    85274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85275 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85276 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85277 File
    85278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85279 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85280 s.vertex_colors = self.vertex_colors(report_stats) 
    85281 File
    85282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85283 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85284 values, outside = self.volume_values() 
    85285 File
    85286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85287 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85288 return self.offset_values(v, n, tf) 
    85289 File
    85290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85291 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85292 values, outside = self.vertex_values(v, xf) 
    85293 File
    85294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85295 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85296 out_of_bounds_list = True) 
    85297 File
    85298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85299 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85300 subregion, step) 
    85301 File
    85302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85303 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85304 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85305 File
    85306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85307 packages/chimerax/map/volume.py", line 1243, in
    85308 matrix_indices_to_xyz_transform 
    85309 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85310 File
    85311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85312 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85313 r = self.subregion(step, subregion) 
    85314 File
    85315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85316 packages/chimerax/map/volume.py", line 1558, in subregion 
    85317 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85318 AttributeError: 'NoneType' object has no attribute 'size' 
    85319  
    85320 AttributeError: 'NoneType' object has no attribute 'size' 
    85321  
    85322 File
    85323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85324 packages/chimerax/map/volume.py", line 1558, in subregion 
    85325 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85326  
    85327 See log for complete Python traceback. 
    85328  
    85329 Traceback (most recent call last): 
    85330 File
    85331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85332 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85333 drew = self.draw_new_frame() 
    85334 File
    85335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85336 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85337 surface.update_clip_caps(view) 
    85338 File
    85339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85340 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85341 subdivision = settings.clipping_cap_subdivision) 
    85342 File
    85343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85344 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85345 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85346 File
    85347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85348 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85349 cm.set_geometry(varray, narray, tarray) 
    85350 File
    85351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85352 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85353 arv() 
    85354 File
    85355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85356 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85357 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85358 File
    85359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85360 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85361 s.vertex_colors = self.vertex_colors(report_stats) 
    85362 File
    85363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85364 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85365 values, outside = self.volume_values() 
    85366 File
    85367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85368 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85369 return self.offset_values(v, n, tf) 
    85370 File
    85371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85372 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85373 values, outside = self.vertex_values(v, xf) 
    85374 File
    85375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85376 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85377 out_of_bounds_list = True) 
    85378 File
    85379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85380 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85381 subregion, step) 
    85382 File
    85383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85384 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85385 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85386 File
    85387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85388 packages/chimerax/map/volume.py", line 1243, in
    85389 matrix_indices_to_xyz_transform 
    85390 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85391 File
    85392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85393 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85394 r = self.subregion(step, subregion) 
    85395 File
    85396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85397 packages/chimerax/map/volume.py", line 1558, in subregion 
    85398 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85399 AttributeError: 'NoneType' object has no attribute 'size' 
    85400  
    85401 AttributeError: 'NoneType' object has no attribute 'size' 
    85402  
    85403 File
    85404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85405 packages/chimerax/map/volume.py", line 1558, in subregion 
    85406 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85407  
    85408 See log for complete Python traceback. 
    85409  
    85410 Traceback (most recent call last): 
    85411 File
    85412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85413 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85414 drew = self.draw_new_frame() 
    85415 File
    85416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85417 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85418 surface.update_clip_caps(view) 
    85419 File
    85420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85421 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85422 subdivision = settings.clipping_cap_subdivision) 
    85423 File
    85424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85425 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85426 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85427 File
    85428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85429 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85430 cm.set_geometry(varray, narray, tarray) 
    85431 File
    85432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85433 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85434 arv() 
    85435 File
    85436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85437 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85438 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85439 File
    85440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85441 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85442 s.vertex_colors = self.vertex_colors(report_stats) 
    85443 File
    85444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85445 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85446 values, outside = self.volume_values() 
    85447 File
    85448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85449 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85450 return self.offset_values(v, n, tf) 
    85451 File
    85452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85453 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85454 values, outside = self.vertex_values(v, xf) 
    85455 File
    85456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85457 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85458 out_of_bounds_list = True) 
    85459 File
    85460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85461 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85462 subregion, step) 
    85463 File
    85464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85465 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85466 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85467 File
    85468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85469 packages/chimerax/map/volume.py", line 1243, in
    85470 matrix_indices_to_xyz_transform 
    85471 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85472 File
    85473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85474 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85475 r = self.subregion(step, subregion) 
    85476 File
    85477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85478 packages/chimerax/map/volume.py", line 1558, in subregion 
    85479 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85480 AttributeError: 'NoneType' object has no attribute 'size' 
    85481  
    85482 AttributeError: 'NoneType' object has no attribute 'size' 
    85483  
    85484 File
    85485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85486 packages/chimerax/map/volume.py", line 1558, in subregion 
    85487 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85488  
    85489 See log for complete Python traceback. 
    85490  
    85491 Traceback (most recent call last): 
    85492 File
    85493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85494 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85495 drew = self.draw_new_frame() 
    85496 File
    85497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85498 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85499 surface.update_clip_caps(view) 
    85500 File
    85501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85502 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85503 subdivision = settings.clipping_cap_subdivision) 
    85504 File
    85505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85506 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85507 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85508 File
    85509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85510 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85511 cm.set_geometry(varray, narray, tarray) 
    85512 File
    85513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85514 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85515 arv() 
    85516 File
    85517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85518 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85519 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85520 File
    85521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85522 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85523 s.vertex_colors = self.vertex_colors(report_stats) 
    85524 File
    85525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85526 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85527 values, outside = self.volume_values() 
    85528 File
    85529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85530 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85531 return self.offset_values(v, n, tf) 
    85532 File
    85533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85534 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85535 values, outside = self.vertex_values(v, xf) 
    85536 File
    85537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85538 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85539 out_of_bounds_list = True) 
    85540 File
    85541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85542 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85543 subregion, step) 
    85544 File
    85545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85546 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85547 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85548 File
    85549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85550 packages/chimerax/map/volume.py", line 1243, in
    85551 matrix_indices_to_xyz_transform 
    85552 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85553 File
    85554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85555 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85556 r = self.subregion(step, subregion) 
    85557 File
    85558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85559 packages/chimerax/map/volume.py", line 1558, in subregion 
    85560 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85561 AttributeError: 'NoneType' object has no attribute 'size' 
    85562  
    85563 AttributeError: 'NoneType' object has no attribute 'size' 
    85564  
    85565 File
    85566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85567 packages/chimerax/map/volume.py", line 1558, in subregion 
    85568 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85569  
    85570 See log for complete Python traceback. 
    85571  
    85572 Traceback (most recent call last): 
    85573 File
    85574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85575 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85576 drew = self.draw_new_frame() 
    85577 File
    85578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85579 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85580 surface.update_clip_caps(view) 
    85581 File
    85582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85583 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85584 subdivision = settings.clipping_cap_subdivision) 
    85585 File
    85586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85587 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85588 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85589 File
    85590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85591 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85592 cm.set_geometry(varray, narray, tarray) 
    85593 File
    85594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85595 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85596 arv() 
    85597 File
    85598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85599 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85600 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85601 File
    85602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85603 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85604 s.vertex_colors = self.vertex_colors(report_stats) 
    85605 File
    85606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85607 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85608 values, outside = self.volume_values() 
    85609 File
    85610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85611 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85612 return self.offset_values(v, n, tf) 
    85613 File
    85614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85615 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85616 values, outside = self.vertex_values(v, xf) 
    85617 File
    85618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85619 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85620 out_of_bounds_list = True) 
    85621 File
    85622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85623 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85624 subregion, step) 
    85625 File
    85626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85627 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85628 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85629 File
    85630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85631 packages/chimerax/map/volume.py", line 1243, in
    85632 matrix_indices_to_xyz_transform 
    85633 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85634 File
    85635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85636 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85637 r = self.subregion(step, subregion) 
    85638 File
    85639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85640 packages/chimerax/map/volume.py", line 1558, in subregion 
    85641 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85642 AttributeError: 'NoneType' object has no attribute 'size' 
    85643  
    85644 AttributeError: 'NoneType' object has no attribute 'size' 
    85645  
    85646 File
    85647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85648 packages/chimerax/map/volume.py", line 1558, in subregion 
    85649 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85650  
    85651 See log for complete Python traceback. 
    85652  
    85653 Traceback (most recent call last): 
    85654 File
    85655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85656 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85657 drew = self.draw_new_frame() 
    85658 File
    85659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85660 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85661 surface.update_clip_caps(view) 
    85662 File
    85663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85664 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85665 subdivision = settings.clipping_cap_subdivision) 
    85666 File
    85667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85668 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85669 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85670 File
    85671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85672 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85673 cm.set_geometry(varray, narray, tarray) 
    85674 File
    85675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85676 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85677 arv() 
    85678 File
    85679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85680 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85681 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85682 File
    85683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85684 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85685 s.vertex_colors = self.vertex_colors(report_stats) 
    85686 File
    85687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85688 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85689 values, outside = self.volume_values() 
    85690 File
    85691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85692 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85693 return self.offset_values(v, n, tf) 
    85694 File
    85695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85696 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85697 values, outside = self.vertex_values(v, xf) 
    85698 File
    85699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85700 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85701 out_of_bounds_list = True) 
    85702 File
    85703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85704 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85705 subregion, step) 
    85706 File
    85707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85708 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85709 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85710 File
    85711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85712 packages/chimerax/map/volume.py", line 1243, in
    85713 matrix_indices_to_xyz_transform 
    85714 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85715 File
    85716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85717 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85718 r = self.subregion(step, subregion) 
    85719 File
    85720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85721 packages/chimerax/map/volume.py", line 1558, in subregion 
    85722 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85723 AttributeError: 'NoneType' object has no attribute 'size' 
    85724  
    85725 AttributeError: 'NoneType' object has no attribute 'size' 
    85726  
    85727 File
    85728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85729 packages/chimerax/map/volume.py", line 1558, in subregion 
    85730 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85731  
    85732 See log for complete Python traceback. 
    85733  
    85734 Traceback (most recent call last): 
    85735 File
    85736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85737 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85738 drew = self.draw_new_frame() 
    85739 File
    85740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85741 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85742 surface.update_clip_caps(view) 
    85743 File
    85744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85745 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85746 subdivision = settings.clipping_cap_subdivision) 
    85747 File
    85748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85749 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85750 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85751 File
    85752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85753 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85754 cm.set_geometry(varray, narray, tarray) 
    85755 File
    85756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85757 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85758 arv() 
    85759 File
    85760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85761 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85762 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85763 File
    85764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85765 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85766 s.vertex_colors = self.vertex_colors(report_stats) 
    85767 File
    85768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85769 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85770 values, outside = self.volume_values() 
    85771 File
    85772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85773 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85774 return self.offset_values(v, n, tf) 
    85775 File
    85776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85777 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85778 values, outside = self.vertex_values(v, xf) 
    85779 File
    85780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85781 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85782 out_of_bounds_list = True) 
    85783 File
    85784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85785 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85786 subregion, step) 
    85787 File
    85788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85789 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85790 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85791 File
    85792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85793 packages/chimerax/map/volume.py", line 1243, in
    85794 matrix_indices_to_xyz_transform 
    85795 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85796 File
    85797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85798 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85799 r = self.subregion(step, subregion) 
    85800 File
    85801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85802 packages/chimerax/map/volume.py", line 1558, in subregion 
    85803 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85804 AttributeError: 'NoneType' object has no attribute 'size' 
    85805  
    85806 AttributeError: 'NoneType' object has no attribute 'size' 
    85807  
    85808 File
    85809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85810 packages/chimerax/map/volume.py", line 1558, in subregion 
    85811 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85812  
    85813 See log for complete Python traceback. 
    85814  
    85815 Traceback (most recent call last): 
    85816 File
    85817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85818 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85819 drew = self.draw_new_frame() 
    85820 File
    85821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85822 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85823 surface.update_clip_caps(view) 
    85824 File
    85825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85826 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85827 subdivision = settings.clipping_cap_subdivision) 
    85828 File
    85829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85830 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85831 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85832 File
    85833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85834 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85835 cm.set_geometry(varray, narray, tarray) 
    85836 File
    85837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85838 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85839 arv() 
    85840 File
    85841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85842 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85843 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85844 File
    85845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85846 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85847 s.vertex_colors = self.vertex_colors(report_stats) 
    85848 File
    85849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85850 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85851 values, outside = self.volume_values() 
    85852 File
    85853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85854 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85855 return self.offset_values(v, n, tf) 
    85856 File
    85857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85858 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85859 values, outside = self.vertex_values(v, xf) 
    85860 File
    85861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85862 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85863 out_of_bounds_list = True) 
    85864 File
    85865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85866 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85867 subregion, step) 
    85868 File
    85869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85870 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85871 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85872 File
    85873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85874 packages/chimerax/map/volume.py", line 1243, in
    85875 matrix_indices_to_xyz_transform 
    85876 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85877 File
    85878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85879 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85880 r = self.subregion(step, subregion) 
    85881 File
    85882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85883 packages/chimerax/map/volume.py", line 1558, in subregion 
    85884 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85885 AttributeError: 'NoneType' object has no attribute 'size' 
    85886  
    85887 AttributeError: 'NoneType' object has no attribute 'size' 
    85888  
    85889 File
    85890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85891 packages/chimerax/map/volume.py", line 1558, in subregion 
    85892 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85893  
    85894 See log for complete Python traceback. 
    85895  
    85896 Traceback (most recent call last): 
    85897 File
    85898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85899 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85900 drew = self.draw_new_frame() 
    85901 File
    85902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85903 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85904 surface.update_clip_caps(view) 
    85905 File
    85906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85907 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85908 subdivision = settings.clipping_cap_subdivision) 
    85909 File
    85910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85911 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85912 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85913 File
    85914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85915 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85916 cm.set_geometry(varray, narray, tarray) 
    85917 File
    85918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85919 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    85920 arv() 
    85921 File
    85922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85923 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    85924 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    85925 File
    85926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85927 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    85928 s.vertex_colors = self.vertex_colors(report_stats) 
    85929 File
    85930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85931 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    85932 values, outside = self.volume_values() 
    85933 File
    85934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85935 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    85936 return self.offset_values(v, n, tf) 
    85937 File
    85938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85939 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    85940 values, outside = self.vertex_values(v, xf) 
    85941 File
    85942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85943 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    85944 out_of_bounds_list = True) 
    85945 File
    85946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85947 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    85948 subregion, step) 
    85949 File
    85950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85951 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    85952 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    85953 File
    85954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85955 packages/chimerax/map/volume.py", line 1243, in
    85956 matrix_indices_to_xyz_transform 
    85957 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    85958 File
    85959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85960 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    85961 r = self.subregion(step, subregion) 
    85962 File
    85963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85964 packages/chimerax/map/volume.py", line 1558, in subregion 
    85965 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85966 AttributeError: 'NoneType' object has no attribute 'size' 
    85967  
    85968 AttributeError: 'NoneType' object has no attribute 'size' 
    85969  
    85970 File
    85971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85972 packages/chimerax/map/volume.py", line 1558, in subregion 
    85973 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    85974  
    85975 See log for complete Python traceback. 
    85976  
    85977 Traceback (most recent call last): 
    85978 File
    85979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85980 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    85981 drew = self.draw_new_frame() 
    85982 File
    85983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85984 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    85985 surface.update_clip_caps(view) 
    85986 File
    85987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85988 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    85989 subdivision = settings.clipping_cap_subdivision) 
    85990 File
    85991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85992 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    85993 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    85994 File
    85995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    85996 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    85997 cm.set_geometry(varray, narray, tarray) 
    85998 File
    85999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86000 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86001 arv() 
    86002 File
    86003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86004 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86005 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86006 File
    86007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86008 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86009 s.vertex_colors = self.vertex_colors(report_stats) 
    86010 File
    86011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86012 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86013 values, outside = self.volume_values() 
    86014 File
    86015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86016 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86017 return self.offset_values(v, n, tf) 
    86018 File
    86019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86020 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86021 values, outside = self.vertex_values(v, xf) 
    86022 File
    86023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86024 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86025 out_of_bounds_list = True) 
    86026 File
    86027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86028 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86029 subregion, step) 
    86030 File
    86031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86032 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86033 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86034 File
    86035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86036 packages/chimerax/map/volume.py", line 1243, in
    86037 matrix_indices_to_xyz_transform 
    86038 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86039 File
    86040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86041 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86042 r = self.subregion(step, subregion) 
    86043 File
    86044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86045 packages/chimerax/map/volume.py", line 1558, in subregion 
    86046 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86047 AttributeError: 'NoneType' object has no attribute 'size' 
    86048  
    86049 AttributeError: 'NoneType' object has no attribute 'size' 
    86050  
    86051 File
    86052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86053 packages/chimerax/map/volume.py", line 1558, in subregion 
    86054 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86055  
    86056 See log for complete Python traceback. 
    86057  
    86058 Traceback (most recent call last): 
    86059 File
    86060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86061 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86062 drew = self.draw_new_frame() 
    86063 File
    86064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86065 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86066 surface.update_clip_caps(view) 
    86067 File
    86068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86069 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86070 subdivision = settings.clipping_cap_subdivision) 
    86071 File
    86072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86073 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86074 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86075 File
    86076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86077 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86078 cm.set_geometry(varray, narray, tarray) 
    86079 File
    86080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86081 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86082 arv() 
    86083 File
    86084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86085 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86086 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86087 File
    86088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86089 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86090 s.vertex_colors = self.vertex_colors(report_stats) 
    86091 File
    86092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86093 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86094 values, outside = self.volume_values() 
    86095 File
    86096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86097 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86098 return self.offset_values(v, n, tf) 
    86099 File
    86100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86101 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86102 values, outside = self.vertex_values(v, xf) 
    86103 File
    86104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86105 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86106 out_of_bounds_list = True) 
    86107 File
    86108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86109 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86110 subregion, step) 
    86111 File
    86112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86113 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86114 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86115 File
    86116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86117 packages/chimerax/map/volume.py", line 1243, in
    86118 matrix_indices_to_xyz_transform 
    86119 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86120 File
    86121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86122 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86123 r = self.subregion(step, subregion) 
    86124 File
    86125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86126 packages/chimerax/map/volume.py", line 1558, in subregion 
    86127 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86128 AttributeError: 'NoneType' object has no attribute 'size' 
    86129  
    86130 AttributeError: 'NoneType' object has no attribute 'size' 
    86131  
    86132 File
    86133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86134 packages/chimerax/map/volume.py", line 1558, in subregion 
    86135 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86136  
    86137 See log for complete Python traceback. 
    86138  
    86139 Traceback (most recent call last): 
    86140 File
    86141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86142 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86143 drew = self.draw_new_frame() 
    86144 File
    86145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86146 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86147 surface.update_clip_caps(view) 
    86148 File
    86149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86150 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86151 subdivision = settings.clipping_cap_subdivision) 
    86152 File
    86153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86154 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86155 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86156 File
    86157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86158 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86159 cm.set_geometry(varray, narray, tarray) 
    86160 File
    86161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86162 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86163 arv() 
    86164 File
    86165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86166 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86167 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86168 File
    86169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86170 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86171 s.vertex_colors = self.vertex_colors(report_stats) 
    86172 File
    86173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86174 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86175 values, outside = self.volume_values() 
    86176 File
    86177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86178 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86179 return self.offset_values(v, n, tf) 
    86180 File
    86181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86182 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86183 values, outside = self.vertex_values(v, xf) 
    86184 File
    86185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86186 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86187 out_of_bounds_list = True) 
    86188 File
    86189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86190 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86191 subregion, step) 
    86192 File
    86193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86194 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86195 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86196 File
    86197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86198 packages/chimerax/map/volume.py", line 1243, in
    86199 matrix_indices_to_xyz_transform 
    86200 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86201 File
    86202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86203 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86204 r = self.subregion(step, subregion) 
    86205 File
    86206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86207 packages/chimerax/map/volume.py", line 1558, in subregion 
    86208 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86209 AttributeError: 'NoneType' object has no attribute 'size' 
    86210  
    86211 AttributeError: 'NoneType' object has no attribute 'size' 
    86212  
    86213 File
    86214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86215 packages/chimerax/map/volume.py", line 1558, in subregion 
    86216 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86217  
    86218 See log for complete Python traceback. 
    86219  
    86220 Traceback (most recent call last): 
    86221 File
    86222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86223 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86224 drew = self.draw_new_frame() 
    86225 File
    86226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86227 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86228 surface.update_clip_caps(view) 
    86229 File
    86230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86231 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86232 subdivision = settings.clipping_cap_subdivision) 
    86233 File
    86234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86235 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86236 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86237 File
    86238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86239 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86240 cm.set_geometry(varray, narray, tarray) 
    86241 File
    86242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86243 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86244 arv() 
    86245 File
    86246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86247 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86248 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86249 File
    86250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86251 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86252 s.vertex_colors = self.vertex_colors(report_stats) 
    86253 File
    86254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86255 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86256 values, outside = self.volume_values() 
    86257 File
    86258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86259 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86260 return self.offset_values(v, n, tf) 
    86261 File
    86262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86263 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86264 values, outside = self.vertex_values(v, xf) 
    86265 File
    86266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86267 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86268 out_of_bounds_list = True) 
    86269 File
    86270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86271 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86272 subregion, step) 
    86273 File
    86274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86275 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86276 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86277 File
    86278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86279 packages/chimerax/map/volume.py", line 1243, in
    86280 matrix_indices_to_xyz_transform 
    86281 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86282 File
    86283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86284 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86285 r = self.subregion(step, subregion) 
    86286 File
    86287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86288 packages/chimerax/map/volume.py", line 1558, in subregion 
    86289 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86290 AttributeError: 'NoneType' object has no attribute 'size' 
    86291  
    86292 AttributeError: 'NoneType' object has no attribute 'size' 
    86293  
    86294 File
    86295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86296 packages/chimerax/map/volume.py", line 1558, in subregion 
    86297 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86298  
    86299 See log for complete Python traceback. 
    86300  
    86301 Traceback (most recent call last): 
    86302 File
    86303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86304 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86305 drew = self.draw_new_frame() 
    86306 File
    86307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86308 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86309 surface.update_clip_caps(view) 
    86310 File
    86311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86312 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86313 subdivision = settings.clipping_cap_subdivision) 
    86314 File
    86315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86316 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86317 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86318 File
    86319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86320 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86321 cm.set_geometry(varray, narray, tarray) 
    86322 File
    86323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86324 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86325 arv() 
    86326 File
    86327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86328 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86329 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86330 File
    86331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86332 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86333 s.vertex_colors = self.vertex_colors(report_stats) 
    86334 File
    86335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86336 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86337 values, outside = self.volume_values() 
    86338 File
    86339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86340 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86341 return self.offset_values(v, n, tf) 
    86342 File
    86343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86344 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86345 values, outside = self.vertex_values(v, xf) 
    86346 File
    86347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86348 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86349 out_of_bounds_list = True) 
    86350 File
    86351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86352 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86353 subregion, step) 
    86354 File
    86355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86356 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86357 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86358 File
    86359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86360 packages/chimerax/map/volume.py", line 1243, in
    86361 matrix_indices_to_xyz_transform 
    86362 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86363 File
    86364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86365 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86366 r = self.subregion(step, subregion) 
    86367 File
    86368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86369 packages/chimerax/map/volume.py", line 1558, in subregion 
    86370 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86371 AttributeError: 'NoneType' object has no attribute 'size' 
    86372  
    86373 AttributeError: 'NoneType' object has no attribute 'size' 
    86374  
    86375 File
    86376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86377 packages/chimerax/map/volume.py", line 1558, in subregion 
    86378 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86379  
    86380 See log for complete Python traceback. 
    86381  
    86382 Traceback (most recent call last): 
    86383 File
    86384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86385 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86386 drew = self.draw_new_frame() 
    86387 File
    86388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86389 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86390 surface.update_clip_caps(view) 
    86391 File
    86392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86393 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86394 subdivision = settings.clipping_cap_subdivision) 
    86395 File
    86396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86397 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86398 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86399 File
    86400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86401 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86402 cm.set_geometry(varray, narray, tarray) 
    86403 File
    86404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86405 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86406 arv() 
    86407 File
    86408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86409 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86410 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86411 File
    86412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86413 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86414 s.vertex_colors = self.vertex_colors(report_stats) 
    86415 File
    86416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86417 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86418 values, outside = self.volume_values() 
    86419 File
    86420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86421 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86422 return self.offset_values(v, n, tf) 
    86423 File
    86424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86425 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86426 values, outside = self.vertex_values(v, xf) 
    86427 File
    86428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86429 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86430 out_of_bounds_list = True) 
    86431 File
    86432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86433 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86434 subregion, step) 
    86435 File
    86436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86437 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86438 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86439 File
    86440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86441 packages/chimerax/map/volume.py", line 1243, in
    86442 matrix_indices_to_xyz_transform 
    86443 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86444 File
    86445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86446 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86447 r = self.subregion(step, subregion) 
    86448 File
    86449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86450 packages/chimerax/map/volume.py", line 1558, in subregion 
    86451 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86452 AttributeError: 'NoneType' object has no attribute 'size' 
    86453  
    86454 AttributeError: 'NoneType' object has no attribute 'size' 
    86455  
    86456 File
    86457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86458 packages/chimerax/map/volume.py", line 1558, in subregion 
    86459 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86460  
    86461 See log for complete Python traceback. 
    86462  
    86463 Traceback (most recent call last): 
    86464 File
    86465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86466 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86467 drew = self.draw_new_frame() 
    86468 File
    86469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86470 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86471 surface.update_clip_caps(view) 
    86472 File
    86473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86474 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86475 subdivision = settings.clipping_cap_subdivision) 
    86476 File
    86477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86478 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86479 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86480 File
    86481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86482 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86483 cm.set_geometry(varray, narray, tarray) 
    86484 File
    86485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86486 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86487 arv() 
    86488 File
    86489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86490 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86491 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86492 File
    86493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86494 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86495 s.vertex_colors = self.vertex_colors(report_stats) 
    86496 File
    86497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86498 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86499 values, outside = self.volume_values() 
    86500 File
    86501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86502 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86503 return self.offset_values(v, n, tf) 
    86504 File
    86505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86506 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86507 values, outside = self.vertex_values(v, xf) 
    86508 File
    86509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86510 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86511 out_of_bounds_list = True) 
    86512 File
    86513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86514 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86515 subregion, step) 
    86516 File
    86517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86518 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86519 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86520 File
    86521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86522 packages/chimerax/map/volume.py", line 1243, in
    86523 matrix_indices_to_xyz_transform 
    86524 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86525 File
    86526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86527 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86528 r = self.subregion(step, subregion) 
    86529 File
    86530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86531 packages/chimerax/map/volume.py", line 1558, in subregion 
    86532 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86533 AttributeError: 'NoneType' object has no attribute 'size' 
    86534  
    86535 AttributeError: 'NoneType' object has no attribute 'size' 
    86536  
    86537 File
    86538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86539 packages/chimerax/map/volume.py", line 1558, in subregion 
    86540 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86541  
    86542 See log for complete Python traceback. 
    86543  
    86544 Traceback (most recent call last): 
    86545 File
    86546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86547 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86548 drew = self.draw_new_frame() 
    86549 File
    86550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86551 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86552 surface.update_clip_caps(view) 
    86553 File
    86554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86555 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86556 subdivision = settings.clipping_cap_subdivision) 
    86557 File
    86558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86559 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86560 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86561 File
    86562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86563 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86564 cm.set_geometry(varray, narray, tarray) 
    86565 File
    86566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86567 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86568 arv() 
    86569 File
    86570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86571 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86572 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86573 File
    86574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86575 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86576 s.vertex_colors = self.vertex_colors(report_stats) 
    86577 File
    86578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86579 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86580 values, outside = self.volume_values() 
    86581 File
    86582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86583 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86584 return self.offset_values(v, n, tf) 
    86585 File
    86586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86587 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86588 values, outside = self.vertex_values(v, xf) 
    86589 File
    86590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86591 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86592 out_of_bounds_list = True) 
    86593 File
    86594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86595 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86596 subregion, step) 
    86597 File
    86598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86599 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86600 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86601 File
    86602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86603 packages/chimerax/map/volume.py", line 1243, in
    86604 matrix_indices_to_xyz_transform 
    86605 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86606 File
    86607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86608 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86609 r = self.subregion(step, subregion) 
    86610 File
    86611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86612 packages/chimerax/map/volume.py", line 1558, in subregion 
    86613 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86614 AttributeError: 'NoneType' object has no attribute 'size' 
    86615  
    86616 AttributeError: 'NoneType' object has no attribute 'size' 
    86617  
    86618 File
    86619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86620 packages/chimerax/map/volume.py", line 1558, in subregion 
    86621 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86622  
    86623 See log for complete Python traceback. 
    86624  
    86625 Traceback (most recent call last): 
    86626 File
    86627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86628 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86629 drew = self.draw_new_frame() 
    86630 File
    86631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86632 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86633 surface.update_clip_caps(view) 
    86634 File
    86635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86636 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86637 subdivision = settings.clipping_cap_subdivision) 
    86638 File
    86639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86640 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86641 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86642 File
    86643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86644 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86645 cm.set_geometry(varray, narray, tarray) 
    86646 File
    86647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86648 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86649 arv() 
    86650 File
    86651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86652 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86653 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86654 File
    86655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86656 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86657 s.vertex_colors = self.vertex_colors(report_stats) 
    86658 File
    86659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86660 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86661 values, outside = self.volume_values() 
    86662 File
    86663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86664 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86665 return self.offset_values(v, n, tf) 
    86666 File
    86667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86668 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86669 values, outside = self.vertex_values(v, xf) 
    86670 File
    86671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86672 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86673 out_of_bounds_list = True) 
    86674 File
    86675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86676 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86677 subregion, step) 
    86678 File
    86679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86680 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86681 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86682 File
    86683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86684 packages/chimerax/map/volume.py", line 1243, in
    86685 matrix_indices_to_xyz_transform 
    86686 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86687 File
    86688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86689 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86690 r = self.subregion(step, subregion) 
    86691 File
    86692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86693 packages/chimerax/map/volume.py", line 1558, in subregion 
    86694 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86695 AttributeError: 'NoneType' object has no attribute 'size' 
    86696  
    86697 AttributeError: 'NoneType' object has no attribute 'size' 
    86698  
    86699 File
    86700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86701 packages/chimerax/map/volume.py", line 1558, in subregion 
    86702 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86703  
    86704 See log for complete Python traceback. 
    86705  
    86706 Traceback (most recent call last): 
    86707 File
    86708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86709 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86710 drew = self.draw_new_frame() 
    86711 File
    86712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86713 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86714 surface.update_clip_caps(view) 
    86715 File
    86716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86717 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86718 subdivision = settings.clipping_cap_subdivision) 
    86719 File
    86720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86721 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86722 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86723 File
    86724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86725 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86726 cm.set_geometry(varray, narray, tarray) 
    86727 File
    86728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86729 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86730 arv() 
    86731 File
    86732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86733 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86734 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86735 File
    86736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86737 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86738 s.vertex_colors = self.vertex_colors(report_stats) 
    86739 File
    86740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86741 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86742 values, outside = self.volume_values() 
    86743 File
    86744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86745 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86746 return self.offset_values(v, n, tf) 
    86747 File
    86748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86749 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86750 values, outside = self.vertex_values(v, xf) 
    86751 File
    86752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86753 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86754 out_of_bounds_list = True) 
    86755 File
    86756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86757 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86758 subregion, step) 
    86759 File
    86760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86761 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86762 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86763 File
    86764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86765 packages/chimerax/map/volume.py", line 1243, in
    86766 matrix_indices_to_xyz_transform 
    86767 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86768 File
    86769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86770 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86771 r = self.subregion(step, subregion) 
    86772 File
    86773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86774 packages/chimerax/map/volume.py", line 1558, in subregion 
    86775 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86776 AttributeError: 'NoneType' object has no attribute 'size' 
    86777  
    86778 AttributeError: 'NoneType' object has no attribute 'size' 
    86779  
    86780 File
    86781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86782 packages/chimerax/map/volume.py", line 1558, in subregion 
    86783 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86784  
    86785 See log for complete Python traceback. 
    86786  
    86787 Traceback (most recent call last): 
    86788 File
    86789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86790 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86791 drew = self.draw_new_frame() 
    86792 File
    86793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86794 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86795 surface.update_clip_caps(view) 
    86796 File
    86797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86798 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86799 subdivision = settings.clipping_cap_subdivision) 
    86800 File
    86801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86802 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86803 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86804 File
    86805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86806 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86807 cm.set_geometry(varray, narray, tarray) 
    86808 File
    86809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86810 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86811 arv() 
    86812 File
    86813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86814 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86815 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86816 File
    86817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86818 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86819 s.vertex_colors = self.vertex_colors(report_stats) 
    86820 File
    86821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86822 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86823 values, outside = self.volume_values() 
    86824 File
    86825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86826 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86827 return self.offset_values(v, n, tf) 
    86828 File
    86829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86830 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86831 values, outside = self.vertex_values(v, xf) 
    86832 File
    86833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86834 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86835 out_of_bounds_list = True) 
    86836 File
    86837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86838 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86839 subregion, step) 
    86840 File
    86841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86842 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86843 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86844 File
    86845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86846 packages/chimerax/map/volume.py", line 1243, in
    86847 matrix_indices_to_xyz_transform 
    86848 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86849 File
    86850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86851 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86852 r = self.subregion(step, subregion) 
    86853 File
    86854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86855 packages/chimerax/map/volume.py", line 1558, in subregion 
    86856 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86857 AttributeError: 'NoneType' object has no attribute 'size' 
    86858  
    86859 AttributeError: 'NoneType' object has no attribute 'size' 
    86860  
    86861 File
    86862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86863 packages/chimerax/map/volume.py", line 1558, in subregion 
    86864 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86865  
    86866 See log for complete Python traceback. 
    86867  
    86868 Traceback (most recent call last): 
    86869 File
    86870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86871 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86872 drew = self.draw_new_frame() 
    86873 File
    86874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86875 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86876 surface.update_clip_caps(view) 
    86877 File
    86878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86879 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86880 subdivision = settings.clipping_cap_subdivision) 
    86881 File
    86882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86883 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86884 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86885 File
    86886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86887 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86888 cm.set_geometry(varray, narray, tarray) 
    86889 File
    86890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86891 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86892 arv() 
    86893 File
    86894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86895 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86896 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86897 File
    86898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86899 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86900 s.vertex_colors = self.vertex_colors(report_stats) 
    86901 File
    86902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86903 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86904 values, outside = self.volume_values() 
    86905 File
    86906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86907 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86908 return self.offset_values(v, n, tf) 
    86909 File
    86910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86911 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86912 values, outside = self.vertex_values(v, xf) 
    86913 File
    86914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86915 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86916 out_of_bounds_list = True) 
    86917 File
    86918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86919 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    86920 subregion, step) 
    86921 File
    86922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86923 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    86924 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    86925 File
    86926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86927 packages/chimerax/map/volume.py", line 1243, in
    86928 matrix_indices_to_xyz_transform 
    86929 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    86930 File
    86931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86932 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    86933 r = self.subregion(step, subregion) 
    86934 File
    86935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86936 packages/chimerax/map/volume.py", line 1558, in subregion 
    86937 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86938 AttributeError: 'NoneType' object has no attribute 'size' 
    86939  
    86940 AttributeError: 'NoneType' object has no attribute 'size' 
    86941  
    86942 File
    86943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86944 packages/chimerax/map/volume.py", line 1558, in subregion 
    86945 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    86946  
    86947 See log for complete Python traceback. 
    86948  
    86949 Traceback (most recent call last): 
    86950 File
    86951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86952 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    86953 drew = self.draw_new_frame() 
    86954 File
    86955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86956 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    86957 surface.update_clip_caps(view) 
    86958 File
    86959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86960 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    86961 subdivision = settings.clipping_cap_subdivision) 
    86962 File
    86963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86964 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    86965 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    86966 File
    86967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86968 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    86969 cm.set_geometry(varray, narray, tarray) 
    86970 File
    86971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86972 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    86973 arv() 
    86974 File
    86975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86976 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    86977 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    86978 File
    86979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86980 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    86981 s.vertex_colors = self.vertex_colors(report_stats) 
    86982 File
    86983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86984 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    86985 values, outside = self.volume_values() 
    86986 File
    86987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86988 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    86989 return self.offset_values(v, n, tf) 
    86990 File
    86991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86992 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    86993 values, outside = self.vertex_values(v, xf) 
    86994 File
    86995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    86996 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    86997 out_of_bounds_list = True) 
    86998 File
    86999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87000 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87001 subregion, step) 
    87002 File
    87003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87004 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87005 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87006 File
    87007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87008 packages/chimerax/map/volume.py", line 1243, in
    87009 matrix_indices_to_xyz_transform 
    87010 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87011 File
    87012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87013 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87014 r = self.subregion(step, subregion) 
    87015 File
    87016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87017 packages/chimerax/map/volume.py", line 1558, in subregion 
    87018 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87019 AttributeError: 'NoneType' object has no attribute 'size' 
    87020  
    87021 AttributeError: 'NoneType' object has no attribute 'size' 
    87022  
    87023 File
    87024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87025 packages/chimerax/map/volume.py", line 1558, in subregion 
    87026 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87027  
    87028 See log for complete Python traceback. 
    87029  
    87030 Traceback (most recent call last): 
    87031 File
    87032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87033 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87034 drew = self.draw_new_frame() 
    87035 File
    87036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87037 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87038 surface.update_clip_caps(view) 
    87039 File
    87040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87041 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87042 subdivision = settings.clipping_cap_subdivision) 
    87043 File
    87044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87045 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87046 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87047 File
    87048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87049 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87050 cm.set_geometry(varray, narray, tarray) 
    87051 File
    87052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87053 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87054 arv() 
    87055 File
    87056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87057 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87058 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87059 File
    87060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87061 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87062 s.vertex_colors = self.vertex_colors(report_stats) 
    87063 File
    87064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87065 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87066 values, outside = self.volume_values() 
    87067 File
    87068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87069 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87070 return self.offset_values(v, n, tf) 
    87071 File
    87072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87073 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87074 values, outside = self.vertex_values(v, xf) 
    87075 File
    87076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87077 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87078 out_of_bounds_list = True) 
    87079 File
    87080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87081 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87082 subregion, step) 
    87083 File
    87084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87085 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87086 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87087 File
    87088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87089 packages/chimerax/map/volume.py", line 1243, in
    87090 matrix_indices_to_xyz_transform 
    87091 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87092 File
    87093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87094 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87095 r = self.subregion(step, subregion) 
    87096 File
    87097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87098 packages/chimerax/map/volume.py", line 1558, in subregion 
    87099 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87100 AttributeError: 'NoneType' object has no attribute 'size' 
    87101  
    87102 AttributeError: 'NoneType' object has no attribute 'size' 
    87103  
    87104 File
    87105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87106 packages/chimerax/map/volume.py", line 1558, in subregion 
    87107 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87108  
    87109 See log for complete Python traceback. 
    87110  
    87111 Traceback (most recent call last): 
    87112 File
    87113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87114 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87115 drew = self.draw_new_frame() 
    87116 File
    87117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87118 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87119 surface.update_clip_caps(view) 
    87120 File
    87121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87122 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87123 subdivision = settings.clipping_cap_subdivision) 
    87124 File
    87125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87126 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87127 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87128 File
    87129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87130 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87131 cm.set_geometry(varray, narray, tarray) 
    87132 File
    87133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87134 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87135 arv() 
    87136 File
    87137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87138 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87139 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87140 File
    87141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87142 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87143 s.vertex_colors = self.vertex_colors(report_stats) 
    87144 File
    87145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87146 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87147 values, outside = self.volume_values() 
    87148 File
    87149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87150 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87151 return self.offset_values(v, n, tf) 
    87152 File
    87153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87154 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87155 values, outside = self.vertex_values(v, xf) 
    87156 File
    87157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87158 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87159 out_of_bounds_list = True) 
    87160 File
    87161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87162 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87163 subregion, step) 
    87164 File
    87165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87166 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87167 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87168 File
    87169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87170 packages/chimerax/map/volume.py", line 1243, in
    87171 matrix_indices_to_xyz_transform 
    87172 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87173 File
    87174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87175 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87176 r = self.subregion(step, subregion) 
    87177 File
    87178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87179 packages/chimerax/map/volume.py", line 1558, in subregion 
    87180 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87181 AttributeError: 'NoneType' object has no attribute 'size' 
    87182  
    87183 AttributeError: 'NoneType' object has no attribute 'size' 
    87184  
    87185 File
    87186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87187 packages/chimerax/map/volume.py", line 1558, in subregion 
    87188 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87189  
    87190 See log for complete Python traceback. 
    87191  
    87192 Traceback (most recent call last): 
    87193 File
    87194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87195 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87196 drew = self.draw_new_frame() 
    87197 File
    87198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87199 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87200 surface.update_clip_caps(view) 
    87201 File
    87202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87203 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87204 subdivision = settings.clipping_cap_subdivision) 
    87205 File
    87206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87207 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87208 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87209 File
    87210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87211 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87212 cm.set_geometry(varray, narray, tarray) 
    87213 File
    87214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87215 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87216 arv() 
    87217 File
    87218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87219 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87220 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87221 File
    87222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87223 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87224 s.vertex_colors = self.vertex_colors(report_stats) 
    87225 File
    87226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87227 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87228 values, outside = self.volume_values() 
    87229 File
    87230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87231 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87232 return self.offset_values(v, n, tf) 
    87233 File
    87234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87235 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87236 values, outside = self.vertex_values(v, xf) 
    87237 File
    87238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87239 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87240 out_of_bounds_list = True) 
    87241 File
    87242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87243 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87244 subregion, step) 
    87245 File
    87246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87247 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87248 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87249 File
    87250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87251 packages/chimerax/map/volume.py", line 1243, in
    87252 matrix_indices_to_xyz_transform 
    87253 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87254 File
    87255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87256 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87257 r = self.subregion(step, subregion) 
    87258 File
    87259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87260 packages/chimerax/map/volume.py", line 1558, in subregion 
    87261 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87262 AttributeError: 'NoneType' object has no attribute 'size' 
    87263  
    87264 AttributeError: 'NoneType' object has no attribute 'size' 
    87265  
    87266 File
    87267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87268 packages/chimerax/map/volume.py", line 1558, in subregion 
    87269 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87270  
    87271 See log for complete Python traceback. 
    87272  
    87273 Traceback (most recent call last): 
    87274 File
    87275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87276 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87277 drew = self.draw_new_frame() 
    87278 File
    87279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87280 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87281 surface.update_clip_caps(view) 
    87282 File
    87283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87284 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87285 subdivision = settings.clipping_cap_subdivision) 
    87286 File
    87287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87288 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87289 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87290 File
    87291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87292 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87293 cm.set_geometry(varray, narray, tarray) 
    87294 File
    87295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87296 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87297 arv() 
    87298 File
    87299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87300 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87301 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87302 File
    87303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87304 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87305 s.vertex_colors = self.vertex_colors(report_stats) 
    87306 File
    87307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87308 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87309 values, outside = self.volume_values() 
    87310 File
    87311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87312 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87313 return self.offset_values(v, n, tf) 
    87314 File
    87315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87316 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87317 values, outside = self.vertex_values(v, xf) 
    87318 File
    87319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87320 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87321 out_of_bounds_list = True) 
    87322 File
    87323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87324 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87325 subregion, step) 
    87326 File
    87327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87328 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87329 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87330 File
    87331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87332 packages/chimerax/map/volume.py", line 1243, in
    87333 matrix_indices_to_xyz_transform 
    87334 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87335 File
    87336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87337 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87338 r = self.subregion(step, subregion) 
    87339 File
    87340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87341 packages/chimerax/map/volume.py", line 1558, in subregion 
    87342 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87343 AttributeError: 'NoneType' object has no attribute 'size' 
    87344  
    87345 AttributeError: 'NoneType' object has no attribute 'size' 
    87346  
    87347 File
    87348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87349 packages/chimerax/map/volume.py", line 1558, in subregion 
    87350 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87351  
    87352 See log for complete Python traceback. 
    87353  
    87354 Traceback (most recent call last): 
    87355 File
    87356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87357 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87358 drew = self.draw_new_frame() 
    87359 File
    87360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87361 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87362 surface.update_clip_caps(view) 
    87363 File
    87364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87365 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87366 subdivision = settings.clipping_cap_subdivision) 
    87367 File
    87368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87369 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87370 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87371 File
    87372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87373 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87374 cm.set_geometry(varray, narray, tarray) 
    87375 File
    87376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87377 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87378 arv() 
    87379 File
    87380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87381 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87382 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87383 File
    87384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87385 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87386 s.vertex_colors = self.vertex_colors(report_stats) 
    87387 File
    87388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87389 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87390 values, outside = self.volume_values() 
    87391 File
    87392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87393 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87394 return self.offset_values(v, n, tf) 
    87395 File
    87396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87397 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87398 values, outside = self.vertex_values(v, xf) 
    87399 File
    87400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87401 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87402 out_of_bounds_list = True) 
    87403 File
    87404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87405 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87406 subregion, step) 
    87407 File
    87408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87409 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87410 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87411 File
    87412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87413 packages/chimerax/map/volume.py", line 1243, in
    87414 matrix_indices_to_xyz_transform 
    87415 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87416 File
    87417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87418 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87419 r = self.subregion(step, subregion) 
    87420 File
    87421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87422 packages/chimerax/map/volume.py", line 1558, in subregion 
    87423 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87424 AttributeError: 'NoneType' object has no attribute 'size' 
    87425  
    87426 AttributeError: 'NoneType' object has no attribute 'size' 
    87427  
    87428 File
    87429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87430 packages/chimerax/map/volume.py", line 1558, in subregion 
    87431 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87432  
    87433 See log for complete Python traceback. 
    87434  
    87435 Traceback (most recent call last): 
    87436 File
    87437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87438 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87439 drew = self.draw_new_frame() 
    87440 File
    87441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87442 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87443 surface.update_clip_caps(view) 
    87444 File
    87445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87446 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87447 subdivision = settings.clipping_cap_subdivision) 
    87448 File
    87449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87450 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87451 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87452 File
    87453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87454 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87455 cm.set_geometry(varray, narray, tarray) 
    87456 File
    87457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87458 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87459 arv() 
    87460 File
    87461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87462 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87463 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87464 File
    87465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87466 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87467 s.vertex_colors = self.vertex_colors(report_stats) 
    87468 File
    87469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87470 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87471 values, outside = self.volume_values() 
    87472 File
    87473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87474 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87475 return self.offset_values(v, n, tf) 
    87476 File
    87477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87478 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87479 values, outside = self.vertex_values(v, xf) 
    87480 File
    87481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87482 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87483 out_of_bounds_list = True) 
    87484 File
    87485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87486 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87487 subregion, step) 
    87488 File
    87489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87490 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87491 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87492 File
    87493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87494 packages/chimerax/map/volume.py", line 1243, in
    87495 matrix_indices_to_xyz_transform 
    87496 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87497 File
    87498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87499 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87500 r = self.subregion(step, subregion) 
    87501 File
    87502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87503 packages/chimerax/map/volume.py", line 1558, in subregion 
    87504 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87505 AttributeError: 'NoneType' object has no attribute 'size' 
    87506  
    87507 AttributeError: 'NoneType' object has no attribute 'size' 
    87508  
    87509 File
    87510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87511 packages/chimerax/map/volume.py", line 1558, in subregion 
    87512 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87513  
    87514 See log for complete Python traceback. 
    87515  
    87516 Traceback (most recent call last): 
    87517 File
    87518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87519 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87520 drew = self.draw_new_frame() 
    87521 File
    87522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87523 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87524 surface.update_clip_caps(view) 
    87525 File
    87526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87527 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87528 subdivision = settings.clipping_cap_subdivision) 
    87529 File
    87530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87531 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87532 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87533 File
    87534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87535 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87536 cm.set_geometry(varray, narray, tarray) 
    87537 File
    87538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87539 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87540 arv() 
    87541 File
    87542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87543 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87544 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87545 File
    87546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87547 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87548 s.vertex_colors = self.vertex_colors(report_stats) 
    87549 File
    87550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87551 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87552 values, outside = self.volume_values() 
    87553 File
    87554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87555 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87556 return self.offset_values(v, n, tf) 
    87557 File
    87558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87559 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87560 values, outside = self.vertex_values(v, xf) 
    87561 File
    87562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87563 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87564 out_of_bounds_list = True) 
    87565 File
    87566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87567 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87568 subregion, step) 
    87569 File
    87570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87571 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87572 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87573 File
    87574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87575 packages/chimerax/map/volume.py", line 1243, in
    87576 matrix_indices_to_xyz_transform 
    87577 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87578 File
    87579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87580 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87581 r = self.subregion(step, subregion) 
    87582 File
    87583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87584 packages/chimerax/map/volume.py", line 1558, in subregion 
    87585 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87586 AttributeError: 'NoneType' object has no attribute 'size' 
    87587  
    87588 AttributeError: 'NoneType' object has no attribute 'size' 
    87589  
    87590 File
    87591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87592 packages/chimerax/map/volume.py", line 1558, in subregion 
    87593 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87594  
    87595 See log for complete Python traceback. 
    87596  
    87597 Traceback (most recent call last): 
    87598 File
    87599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87600 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87601 drew = self.draw_new_frame() 
    87602 File
    87603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87604 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87605 surface.update_clip_caps(view) 
    87606 File
    87607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87608 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87609 subdivision = settings.clipping_cap_subdivision) 
    87610 File
    87611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87612 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87613 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87614 File
    87615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87616 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87617 cm.set_geometry(varray, narray, tarray) 
    87618 File
    87619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87620 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87621 arv() 
    87622 File
    87623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87624 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87625 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87626 File
    87627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87628 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87629 s.vertex_colors = self.vertex_colors(report_stats) 
    87630 File
    87631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87632 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87633 values, outside = self.volume_values() 
    87634 File
    87635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87636 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87637 return self.offset_values(v, n, tf) 
    87638 File
    87639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87640 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87641 values, outside = self.vertex_values(v, xf) 
    87642 File
    87643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87644 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87645 out_of_bounds_list = True) 
    87646 File
    87647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87648 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87649 subregion, step) 
    87650 File
    87651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87652 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87653 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87654 File
    87655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87656 packages/chimerax/map/volume.py", line 1243, in
    87657 matrix_indices_to_xyz_transform 
    87658 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87659 File
    87660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87661 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87662 r = self.subregion(step, subregion) 
    87663 File
    87664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87665 packages/chimerax/map/volume.py", line 1558, in subregion 
    87666 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87667 AttributeError: 'NoneType' object has no attribute 'size' 
    87668  
    87669 AttributeError: 'NoneType' object has no attribute 'size' 
    87670  
    87671 File
    87672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87673 packages/chimerax/map/volume.py", line 1558, in subregion 
    87674 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87675  
    87676 See log for complete Python traceback. 
    87677  
    87678 Traceback (most recent call last): 
    87679 File
    87680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87681 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87682 drew = self.draw_new_frame() 
    87683 File
    87684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87685 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87686 surface.update_clip_caps(view) 
    87687 File
    87688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87689 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87690 subdivision = settings.clipping_cap_subdivision) 
    87691 File
    87692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87693 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87694 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87695 File
    87696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87697 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87698 cm.set_geometry(varray, narray, tarray) 
    87699 File
    87700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87701 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87702 arv() 
    87703 File
    87704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87705 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87706 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87707 File
    87708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87709 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87710 s.vertex_colors = self.vertex_colors(report_stats) 
    87711 File
    87712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87713 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87714 values, outside = self.volume_values() 
    87715 File
    87716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87717 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87718 return self.offset_values(v, n, tf) 
    87719 File
    87720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87721 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87722 values, outside = self.vertex_values(v, xf) 
    87723 File
    87724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87725 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87726 out_of_bounds_list = True) 
    87727 File
    87728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87729 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87730 subregion, step) 
    87731 File
    87732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87733 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87734 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87735 File
    87736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87737 packages/chimerax/map/volume.py", line 1243, in
    87738 matrix_indices_to_xyz_transform 
    87739 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87740 File
    87741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87742 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87743 r = self.subregion(step, subregion) 
    87744 File
    87745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87746 packages/chimerax/map/volume.py", line 1558, in subregion 
    87747 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87748 AttributeError: 'NoneType' object has no attribute 'size' 
    87749  
    87750 AttributeError: 'NoneType' object has no attribute 'size' 
    87751  
    87752 File
    87753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87754 packages/chimerax/map/volume.py", line 1558, in subregion 
    87755 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87756  
    87757 See log for complete Python traceback. 
    87758  
    87759 Traceback (most recent call last): 
    87760 File
    87761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87762 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87763 drew = self.draw_new_frame() 
    87764 File
    87765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87766 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87767 surface.update_clip_caps(view) 
    87768 File
    87769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87770 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87771 subdivision = settings.clipping_cap_subdivision) 
    87772 File
    87773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87774 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87775 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87776 File
    87777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87778 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87779 cm.set_geometry(varray, narray, tarray) 
    87780 File
    87781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87782 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87783 arv() 
    87784 File
    87785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87786 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87787 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87788 File
    87789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87790 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87791 s.vertex_colors = self.vertex_colors(report_stats) 
    87792 File
    87793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87794 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87795 values, outside = self.volume_values() 
    87796 File
    87797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87798 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87799 return self.offset_values(v, n, tf) 
    87800 File
    87801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87802 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87803 values, outside = self.vertex_values(v, xf) 
    87804 File
    87805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87806 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87807 out_of_bounds_list = True) 
    87808 File
    87809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87810 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87811 subregion, step) 
    87812 File
    87813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87814 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87815 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87816 File
    87817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87818 packages/chimerax/map/volume.py", line 1243, in
    87819 matrix_indices_to_xyz_transform 
    87820 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87821 File
    87822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87823 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87824 r = self.subregion(step, subregion) 
    87825 File
    87826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87827 packages/chimerax/map/volume.py", line 1558, in subregion 
    87828 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87829 AttributeError: 'NoneType' object has no attribute 'size' 
    87830  
    87831 AttributeError: 'NoneType' object has no attribute 'size' 
    87832  
    87833 File
    87834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87835 packages/chimerax/map/volume.py", line 1558, in subregion 
    87836 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87837  
    87838 See log for complete Python traceback. 
    87839  
    87840 Traceback (most recent call last): 
    87841 File
    87842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87843 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87844 drew = self.draw_new_frame() 
    87845 File
    87846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87847 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87848 surface.update_clip_caps(view) 
    87849 File
    87850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87851 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87852 subdivision = settings.clipping_cap_subdivision) 
    87853 File
    87854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87855 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87856 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87857 File
    87858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87859 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87860 cm.set_geometry(varray, narray, tarray) 
    87861 File
    87862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87863 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87864 arv() 
    87865 File
    87866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87867 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87868 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87869 File
    87870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87871 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87872 s.vertex_colors = self.vertex_colors(report_stats) 
    87873 File
    87874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87875 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87876 values, outside = self.volume_values() 
    87877 File
    87878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87879 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87880 return self.offset_values(v, n, tf) 
    87881 File
    87882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87883 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87884 values, outside = self.vertex_values(v, xf) 
    87885 File
    87886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87887 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87888 out_of_bounds_list = True) 
    87889 File
    87890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87891 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87892 subregion, step) 
    87893 File
    87894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87895 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87896 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87897 File
    87898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87899 packages/chimerax/map/volume.py", line 1243, in
    87900 matrix_indices_to_xyz_transform 
    87901 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87902 File
    87903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87904 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87905 r = self.subregion(step, subregion) 
    87906 File
    87907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87908 packages/chimerax/map/volume.py", line 1558, in subregion 
    87909 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87910 AttributeError: 'NoneType' object has no attribute 'size' 
    87911  
    87912 AttributeError: 'NoneType' object has no attribute 'size' 
    87913  
    87914 File
    87915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87916 packages/chimerax/map/volume.py", line 1558, in subregion 
    87917 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87918  
    87919 See log for complete Python traceback. 
    87920  
    87921 Traceback (most recent call last): 
    87922 File
    87923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87924 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    87925 drew = self.draw_new_frame() 
    87926 File
    87927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87928 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    87929 surface.update_clip_caps(view) 
    87930 File
    87931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87932 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    87933 subdivision = settings.clipping_cap_subdivision) 
    87934 File
    87935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87936 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    87937 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    87938 File
    87939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87940 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    87941 cm.set_geometry(varray, narray, tarray) 
    87942 File
    87943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87944 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    87945 arv() 
    87946 File
    87947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87948 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    87949 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    87950 File
    87951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87952 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    87953 s.vertex_colors = self.vertex_colors(report_stats) 
    87954 File
    87955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87956 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    87957 values, outside = self.volume_values() 
    87958 File
    87959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87960 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    87961 return self.offset_values(v, n, tf) 
    87962 File
    87963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87964 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    87965 values, outside = self.vertex_values(v, xf) 
    87966 File
    87967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87968 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    87969 out_of_bounds_list = True) 
    87970 File
    87971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87972 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    87973 subregion, step) 
    87974 File
    87975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87976 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    87977 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    87978 File
    87979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87980 packages/chimerax/map/volume.py", line 1243, in
    87981 matrix_indices_to_xyz_transform 
    87982 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    87983 File
    87984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87985 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    87986 r = self.subregion(step, subregion) 
    87987 File
    87988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87989 packages/chimerax/map/volume.py", line 1558, in subregion 
    87990 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87991 AttributeError: 'NoneType' object has no attribute 'size' 
    87992  
    87993 AttributeError: 'NoneType' object has no attribute 'size' 
    87994  
    87995 File
    87996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    87997 packages/chimerax/map/volume.py", line 1558, in subregion 
    87998 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    87999  
    88000 See log for complete Python traceback. 
    88001  
    88002 Traceback (most recent call last): 
    88003 File
    88004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88005 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88006 drew = self.draw_new_frame() 
    88007 File
    88008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88009 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88010 surface.update_clip_caps(view) 
    88011 File
    88012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88013 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88014 subdivision = settings.clipping_cap_subdivision) 
    88015 File
    88016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88017 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88018 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88019 File
    88020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88021 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88022 cm.set_geometry(varray, narray, tarray) 
    88023 File
    88024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88025 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88026 arv() 
    88027 File
    88028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88029 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88030 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88031 File
    88032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88033 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88034 s.vertex_colors = self.vertex_colors(report_stats) 
    88035 File
    88036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88037 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88038 values, outside = self.volume_values() 
    88039 File
    88040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88041 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88042 return self.offset_values(v, n, tf) 
    88043 File
    88044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88045 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88046 values, outside = self.vertex_values(v, xf) 
    88047 File
    88048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88049 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88050 out_of_bounds_list = True) 
    88051 File
    88052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88053 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88054 subregion, step) 
    88055 File
    88056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88057 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88058 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88059 File
    88060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88061 packages/chimerax/map/volume.py", line 1243, in
    88062 matrix_indices_to_xyz_transform 
    88063 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88064 File
    88065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88066 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88067 r = self.subregion(step, subregion) 
    88068 File
    88069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88070 packages/chimerax/map/volume.py", line 1558, in subregion 
    88071 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88072 AttributeError: 'NoneType' object has no attribute 'size' 
    88073  
    88074 AttributeError: 'NoneType' object has no attribute 'size' 
    88075  
    88076 File
    88077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88078 packages/chimerax/map/volume.py", line 1558, in subregion 
    88079 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88080  
    88081 See log for complete Python traceback. 
    88082  
    88083 Traceback (most recent call last): 
    88084 File
    88085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88086 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88087 drew = self.draw_new_frame() 
    88088 File
    88089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88090 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88091 surface.update_clip_caps(view) 
    88092 File
    88093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88094 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88095 subdivision = settings.clipping_cap_subdivision) 
    88096 File
    88097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88098 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88099 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88100 File
    88101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88102 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88103 cm.set_geometry(varray, narray, tarray) 
    88104 File
    88105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88106 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88107 arv() 
    88108 File
    88109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88110 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88111 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88112 File
    88113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88114 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88115 s.vertex_colors = self.vertex_colors(report_stats) 
    88116 File
    88117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88118 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88119 values, outside = self.volume_values() 
    88120 File
    88121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88122 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88123 return self.offset_values(v, n, tf) 
    88124 File
    88125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88126 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88127 values, outside = self.vertex_values(v, xf) 
    88128 File
    88129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88130 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88131 out_of_bounds_list = True) 
    88132 File
    88133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88134 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88135 subregion, step) 
    88136 File
    88137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88138 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88139 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88140 File
    88141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88142 packages/chimerax/map/volume.py", line 1243, in
    88143 matrix_indices_to_xyz_transform 
    88144 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88145 File
    88146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88147 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88148 r = self.subregion(step, subregion) 
    88149 File
    88150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88151 packages/chimerax/map/volume.py", line 1558, in subregion 
    88152 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88153 AttributeError: 'NoneType' object has no attribute 'size' 
    88154  
    88155 AttributeError: 'NoneType' object has no attribute 'size' 
    88156  
    88157 File
    88158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88159 packages/chimerax/map/volume.py", line 1558, in subregion 
    88160 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88161  
    88162 See log for complete Python traceback. 
    88163  
    88164 Traceback (most recent call last): 
    88165 File
    88166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88167 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88168 drew = self.draw_new_frame() 
    88169 File
    88170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88171 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88172 surface.update_clip_caps(view) 
    88173 File
    88174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88175 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88176 subdivision = settings.clipping_cap_subdivision) 
    88177 File
    88178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88179 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88180 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88181 File
    88182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88183 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88184 cm.set_geometry(varray, narray, tarray) 
    88185 File
    88186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88187 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88188 arv() 
    88189 File
    88190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88191 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88192 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88193 File
    88194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88195 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88196 s.vertex_colors = self.vertex_colors(report_stats) 
    88197 File
    88198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88199 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88200 values, outside = self.volume_values() 
    88201 File
    88202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88203 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88204 return self.offset_values(v, n, tf) 
    88205 File
    88206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88207 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88208 values, outside = self.vertex_values(v, xf) 
    88209 File
    88210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88211 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88212 out_of_bounds_list = True) 
    88213 File
    88214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88215 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88216 subregion, step) 
    88217 File
    88218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88219 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88220 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88221 File
    88222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88223 packages/chimerax/map/volume.py", line 1243, in
    88224 matrix_indices_to_xyz_transform 
    88225 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88226 File
    88227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88228 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88229 r = self.subregion(step, subregion) 
    88230 File
    88231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88232 packages/chimerax/map/volume.py", line 1558, in subregion 
    88233 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88234 AttributeError: 'NoneType' object has no attribute 'size' 
    88235  
    88236 AttributeError: 'NoneType' object has no attribute 'size' 
    88237  
    88238 File
    88239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88240 packages/chimerax/map/volume.py", line 1558, in subregion 
    88241 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88242  
    88243 See log for complete Python traceback. 
    88244  
    88245 Traceback (most recent call last): 
    88246 File
    88247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88248 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88249 drew = self.draw_new_frame() 
    88250 File
    88251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88252 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88253 surface.update_clip_caps(view) 
    88254 File
    88255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88256 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88257 subdivision = settings.clipping_cap_subdivision) 
    88258 File
    88259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88260 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88261 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88262 File
    88263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88264 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88265 cm.set_geometry(varray, narray, tarray) 
    88266 File
    88267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88268 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88269 arv() 
    88270 File
    88271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88272 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88273 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88274 File
    88275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88276 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88277 s.vertex_colors = self.vertex_colors(report_stats) 
    88278 File
    88279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88280 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88281 values, outside = self.volume_values() 
    88282 File
    88283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88284 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88285 return self.offset_values(v, n, tf) 
    88286 File
    88287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88288 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88289 values, outside = self.vertex_values(v, xf) 
    88290 File
    88291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88292 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88293 out_of_bounds_list = True) 
    88294 File
    88295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88296 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88297 subregion, step) 
    88298 File
    88299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88300 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88301 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88302 File
    88303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88304 packages/chimerax/map/volume.py", line 1243, in
    88305 matrix_indices_to_xyz_transform 
    88306 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88307 File
    88308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88309 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88310 r = self.subregion(step, subregion) 
    88311 File
    88312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88313 packages/chimerax/map/volume.py", line 1558, in subregion 
    88314 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88315 AttributeError: 'NoneType' object has no attribute 'size' 
    88316  
    88317 AttributeError: 'NoneType' object has no attribute 'size' 
    88318  
    88319 File
    88320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88321 packages/chimerax/map/volume.py", line 1558, in subregion 
    88322 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88323  
    88324 See log for complete Python traceback. 
    88325  
    88326 Traceback (most recent call last): 
    88327 File
    88328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88329 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88330 drew = self.draw_new_frame() 
    88331 File
    88332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88333 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88334 surface.update_clip_caps(view) 
    88335 File
    88336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88337 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88338 subdivision = settings.clipping_cap_subdivision) 
    88339 File
    88340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88341 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88342 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88343 File
    88344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88345 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88346 cm.set_geometry(varray, narray, tarray) 
    88347 File
    88348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88349 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88350 arv() 
    88351 File
    88352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88353 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88354 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88355 File
    88356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88357 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88358 s.vertex_colors = self.vertex_colors(report_stats) 
    88359 File
    88360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88361 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88362 values, outside = self.volume_values() 
    88363 File
    88364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88365 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88366 return self.offset_values(v, n, tf) 
    88367 File
    88368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88369 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88370 values, outside = self.vertex_values(v, xf) 
    88371 File
    88372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88373 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88374 out_of_bounds_list = True) 
    88375 File
    88376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88377 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88378 subregion, step) 
    88379 File
    88380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88381 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88382 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88383 File
    88384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88385 packages/chimerax/map/volume.py", line 1243, in
    88386 matrix_indices_to_xyz_transform 
    88387 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88388 File
    88389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88390 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88391 r = self.subregion(step, subregion) 
    88392 File
    88393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88394 packages/chimerax/map/volume.py", line 1558, in subregion 
    88395 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88396 AttributeError: 'NoneType' object has no attribute 'size' 
    88397  
    88398 AttributeError: 'NoneType' object has no attribute 'size' 
    88399  
    88400 File
    88401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88402 packages/chimerax/map/volume.py", line 1558, in subregion 
    88403 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88404  
    88405 See log for complete Python traceback. 
    88406  
    88407 Traceback (most recent call last): 
    88408 File
    88409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88410 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88411 drew = self.draw_new_frame() 
    88412 File
    88413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88414 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88415 surface.update_clip_caps(view) 
    88416 File
    88417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88418 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88419 subdivision = settings.clipping_cap_subdivision) 
    88420 File
    88421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88422 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88423 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88424 File
    88425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88426 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88427 cm.set_geometry(varray, narray, tarray) 
    88428 File
    88429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88430 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88431 arv() 
    88432 File
    88433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88434 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88435 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88436 File
    88437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88438 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88439 s.vertex_colors = self.vertex_colors(report_stats) 
    88440 File
    88441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88442 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88443 values, outside = self.volume_values() 
    88444 File
    88445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88446 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88447 return self.offset_values(v, n, tf) 
    88448 File
    88449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88450 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88451 values, outside = self.vertex_values(v, xf) 
    88452 File
    88453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88454 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88455 out_of_bounds_list = True) 
    88456 File
    88457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88458 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88459 subregion, step) 
    88460 File
    88461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88462 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88463 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88464 File
    88465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88466 packages/chimerax/map/volume.py", line 1243, in
    88467 matrix_indices_to_xyz_transform 
    88468 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88469 File
    88470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88471 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88472 r = self.subregion(step, subregion) 
    88473 File
    88474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88475 packages/chimerax/map/volume.py", line 1558, in subregion 
    88476 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88477 AttributeError: 'NoneType' object has no attribute 'size' 
    88478  
    88479 AttributeError: 'NoneType' object has no attribute 'size' 
    88480  
    88481 File
    88482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88483 packages/chimerax/map/volume.py", line 1558, in subregion 
    88484 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88485  
    88486 See log for complete Python traceback. 
    88487  
    88488 Traceback (most recent call last): 
    88489 File
    88490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88491 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88492 drew = self.draw_new_frame() 
    88493 File
    88494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88495 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88496 surface.update_clip_caps(view) 
    88497 File
    88498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88499 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88500 subdivision = settings.clipping_cap_subdivision) 
    88501 File
    88502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88503 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88504 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88505 File
    88506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88507 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88508 cm.set_geometry(varray, narray, tarray) 
    88509 File
    88510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88511 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88512 arv() 
    88513 File
    88514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88515 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88516 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88517 File
    88518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88519 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88520 s.vertex_colors = self.vertex_colors(report_stats) 
    88521 File
    88522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88523 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88524 values, outside = self.volume_values() 
    88525 File
    88526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88527 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88528 return self.offset_values(v, n, tf) 
    88529 File
    88530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88531 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88532 values, outside = self.vertex_values(v, xf) 
    88533 File
    88534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88535 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88536 out_of_bounds_list = True) 
    88537 File
    88538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88539 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88540 subregion, step) 
    88541 File
    88542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88543 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88544 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88545 File
    88546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88547 packages/chimerax/map/volume.py", line 1243, in
    88548 matrix_indices_to_xyz_transform 
    88549 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88550 File
    88551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88552 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88553 r = self.subregion(step, subregion) 
    88554 File
    88555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88556 packages/chimerax/map/volume.py", line 1558, in subregion 
    88557 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88558 AttributeError: 'NoneType' object has no attribute 'size' 
    88559  
    88560 AttributeError: 'NoneType' object has no attribute 'size' 
    88561  
    88562 File
    88563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88564 packages/chimerax/map/volume.py", line 1558, in subregion 
    88565 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88566  
    88567 See log for complete Python traceback. 
    88568  
    88569 Traceback (most recent call last): 
    88570 File
    88571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88572 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88573 drew = self.draw_new_frame() 
    88574 File
    88575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88576 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88577 surface.update_clip_caps(view) 
    88578 File
    88579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88580 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88581 subdivision = settings.clipping_cap_subdivision) 
    88582 File
    88583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88584 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88585 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88586 File
    88587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88588 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88589 cm.set_geometry(varray, narray, tarray) 
    88590 File
    88591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88592 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88593 arv() 
    88594 File
    88595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88596 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88597 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88598 File
    88599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88600 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88601 s.vertex_colors = self.vertex_colors(report_stats) 
    88602 File
    88603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88604 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88605 values, outside = self.volume_values() 
    88606 File
    88607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88608 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88609 return self.offset_values(v, n, tf) 
    88610 File
    88611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88612 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88613 values, outside = self.vertex_values(v, xf) 
    88614 File
    88615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88616 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88617 out_of_bounds_list = True) 
    88618 File
    88619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88620 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88621 subregion, step) 
    88622 File
    88623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88624 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88625 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88626 File
    88627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88628 packages/chimerax/map/volume.py", line 1243, in
    88629 matrix_indices_to_xyz_transform 
    88630 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88631 File
    88632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88633 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88634 r = self.subregion(step, subregion) 
    88635 File
    88636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88637 packages/chimerax/map/volume.py", line 1558, in subregion 
    88638 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88639 AttributeError: 'NoneType' object has no attribute 'size' 
    88640  
    88641 AttributeError: 'NoneType' object has no attribute 'size' 
    88642  
    88643 File
    88644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88645 packages/chimerax/map/volume.py", line 1558, in subregion 
    88646 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88647  
    88648 See log for complete Python traceback. 
    88649  
    88650 Traceback (most recent call last): 
    88651 File
    88652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88653 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88654 drew = self.draw_new_frame() 
    88655 File
    88656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88657 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88658 surface.update_clip_caps(view) 
    88659 File
    88660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88661 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88662 subdivision = settings.clipping_cap_subdivision) 
    88663 File
    88664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88665 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88666 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88667 File
    88668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88669 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88670 cm.set_geometry(varray, narray, tarray) 
    88671 File
    88672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88673 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88674 arv() 
    88675 File
    88676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88677 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88678 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88679 File
    88680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88681 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88682 s.vertex_colors = self.vertex_colors(report_stats) 
    88683 File
    88684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88685 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88686 values, outside = self.volume_values() 
    88687 File
    88688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88689 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88690 return self.offset_values(v, n, tf) 
    88691 File
    88692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88693 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88694 values, outside = self.vertex_values(v, xf) 
    88695 File
    88696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88697 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88698 out_of_bounds_list = True) 
    88699 File
    88700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88701 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88702 subregion, step) 
    88703 File
    88704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88705 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88706 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88707 File
    88708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88709 packages/chimerax/map/volume.py", line 1243, in
    88710 matrix_indices_to_xyz_transform 
    88711 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88712 File
    88713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88714 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88715 r = self.subregion(step, subregion) 
    88716 File
    88717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88718 packages/chimerax/map/volume.py", line 1558, in subregion 
    88719 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88720 AttributeError: 'NoneType' object has no attribute 'size' 
    88721  
    88722 AttributeError: 'NoneType' object has no attribute 'size' 
    88723  
    88724 File
    88725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88726 packages/chimerax/map/volume.py", line 1558, in subregion 
    88727 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88728  
    88729 See log for complete Python traceback. 
    88730  
    88731 Traceback (most recent call last): 
    88732 File
    88733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88734 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88735 drew = self.draw_new_frame() 
    88736 File
    88737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88738 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88739 surface.update_clip_caps(view) 
    88740 File
    88741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88742 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88743 subdivision = settings.clipping_cap_subdivision) 
    88744 File
    88745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88746 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88747 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88748 File
    88749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88750 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88751 cm.set_geometry(varray, narray, tarray) 
    88752 File
    88753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88754 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88755 arv() 
    88756 File
    88757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88758 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88759 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88760 File
    88761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88762 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88763 s.vertex_colors = self.vertex_colors(report_stats) 
    88764 File
    88765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88766 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88767 values, outside = self.volume_values() 
    88768 File
    88769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88770 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88771 return self.offset_values(v, n, tf) 
    88772 File
    88773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88774 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88775 values, outside = self.vertex_values(v, xf) 
    88776 File
    88777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88778 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88779 out_of_bounds_list = True) 
    88780 File
    88781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88782 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88783 subregion, step) 
    88784 File
    88785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88786 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88787 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88788 File
    88789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88790 packages/chimerax/map/volume.py", line 1243, in
    88791 matrix_indices_to_xyz_transform 
    88792 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88793 File
    88794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88795 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88796 r = self.subregion(step, subregion) 
    88797 File
    88798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88799 packages/chimerax/map/volume.py", line 1558, in subregion 
    88800 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88801 AttributeError: 'NoneType' object has no attribute 'size' 
    88802  
    88803 AttributeError: 'NoneType' object has no attribute 'size' 
    88804  
    88805 File
    88806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88807 packages/chimerax/map/volume.py", line 1558, in subregion 
    88808 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88809  
    88810 See log for complete Python traceback. 
    88811  
    88812 Traceback (most recent call last): 
    88813 File
    88814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88815 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88816 drew = self.draw_new_frame() 
    88817 File
    88818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88819 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88820 surface.update_clip_caps(view) 
    88821 File
    88822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88823 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88824 subdivision = settings.clipping_cap_subdivision) 
    88825 File
    88826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88827 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88828 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88829 File
    88830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88831 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88832 cm.set_geometry(varray, narray, tarray) 
    88833 File
    88834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88835 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88836 arv() 
    88837 File
    88838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88839 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88840 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88841 File
    88842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88843 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88844 s.vertex_colors = self.vertex_colors(report_stats) 
    88845 File
    88846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88847 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88848 values, outside = self.volume_values() 
    88849 File
    88850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88851 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88852 return self.offset_values(v, n, tf) 
    88853 File
    88854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88855 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88856 values, outside = self.vertex_values(v, xf) 
    88857 File
    88858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88859 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88860 out_of_bounds_list = True) 
    88861 File
    88862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88863 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88864 subregion, step) 
    88865 File
    88866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88867 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88868 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88869 File
    88870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88871 packages/chimerax/map/volume.py", line 1243, in
    88872 matrix_indices_to_xyz_transform 
    88873 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88874 File
    88875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88876 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88877 r = self.subregion(step, subregion) 
    88878 File
    88879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88880 packages/chimerax/map/volume.py", line 1558, in subregion 
    88881 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88882 AttributeError: 'NoneType' object has no attribute 'size' 
    88883  
    88884 AttributeError: 'NoneType' object has no attribute 'size' 
    88885  
    88886 File
    88887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88888 packages/chimerax/map/volume.py", line 1558, in subregion 
    88889 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88890  
    88891 See log for complete Python traceback. 
    88892  
    88893 Traceback (most recent call last): 
    88894 File
    88895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88896 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88897 drew = self.draw_new_frame() 
    88898 File
    88899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88900 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88901 surface.update_clip_caps(view) 
    88902 File
    88903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88904 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88905 subdivision = settings.clipping_cap_subdivision) 
    88906 File
    88907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88908 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88909 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88910 File
    88911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88912 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88913 cm.set_geometry(varray, narray, tarray) 
    88914 File
    88915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88916 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88917 arv() 
    88918 File
    88919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88920 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    88921 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    88922 File
    88923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88924 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    88925 s.vertex_colors = self.vertex_colors(report_stats) 
    88926 File
    88927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88928 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    88929 values, outside = self.volume_values() 
    88930 File
    88931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88932 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    88933 return self.offset_values(v, n, tf) 
    88934 File
    88935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88936 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    88937 values, outside = self.vertex_values(v, xf) 
    88938 File
    88939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88940 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    88941 out_of_bounds_list = True) 
    88942 File
    88943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88944 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    88945 subregion, step) 
    88946 File
    88947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88948 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    88949 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    88950 File
    88951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88952 packages/chimerax/map/volume.py", line 1243, in
    88953 matrix_indices_to_xyz_transform 
    88954 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    88955 File
    88956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88957 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    88958 r = self.subregion(step, subregion) 
    88959 File
    88960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88961 packages/chimerax/map/volume.py", line 1558, in subregion 
    88962 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88963 AttributeError: 'NoneType' object has no attribute 'size' 
    88964  
    88965 AttributeError: 'NoneType' object has no attribute 'size' 
    88966  
    88967 File
    88968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88969 packages/chimerax/map/volume.py", line 1558, in subregion 
    88970 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    88971  
    88972 See log for complete Python traceback. 
    88973  
    88974 Traceback (most recent call last): 
    88975 File
    88976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88977 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    88978 drew = self.draw_new_frame() 
    88979 File
    88980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88981 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    88982 surface.update_clip_caps(view) 
    88983 File
    88984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88985 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    88986 subdivision = settings.clipping_cap_subdivision) 
    88987 File
    88988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88989 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    88990 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    88991 File
    88992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88993 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    88994 cm.set_geometry(varray, narray, tarray) 
    88995 File
    88996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    88997 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    88998 arv() 
    88999 File
    89000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89001 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89002 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89003 File
    89004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89005 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89006 s.vertex_colors = self.vertex_colors(report_stats) 
    89007 File
    89008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89009 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89010 values, outside = self.volume_values() 
    89011 File
    89012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89013 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89014 return self.offset_values(v, n, tf) 
    89015 File
    89016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89017 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89018 values, outside = self.vertex_values(v, xf) 
    89019 File
    89020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89021 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89022 out_of_bounds_list = True) 
    89023 File
    89024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89025 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89026 subregion, step) 
    89027 File
    89028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89029 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89030 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89031 File
    89032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89033 packages/chimerax/map/volume.py", line 1243, in
    89034 matrix_indices_to_xyz_transform 
    89035 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89036 File
    89037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89038 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89039 r = self.subregion(step, subregion) 
    89040 File
    89041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89042 packages/chimerax/map/volume.py", line 1558, in subregion 
    89043 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89044 AttributeError: 'NoneType' object has no attribute 'size' 
    89045  
    89046 AttributeError: 'NoneType' object has no attribute 'size' 
    89047  
    89048 File
    89049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89050 packages/chimerax/map/volume.py", line 1558, in subregion 
    89051 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89052  
    89053 See log for complete Python traceback. 
    89054  
    89055 Traceback (most recent call last): 
    89056 File
    89057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89058 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89059 drew = self.draw_new_frame() 
    89060 File
    89061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89062 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89063 surface.update_clip_caps(view) 
    89064 File
    89065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89066 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89067 subdivision = settings.clipping_cap_subdivision) 
    89068 File
    89069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89070 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89071 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89072 File
    89073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89074 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89075 cm.set_geometry(varray, narray, tarray) 
    89076 File
    89077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89078 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89079 arv() 
    89080 File
    89081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89082 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89083 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89084 File
    89085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89086 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89087 s.vertex_colors = self.vertex_colors(report_stats) 
    89088 File
    89089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89090 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89091 values, outside = self.volume_values() 
    89092 File
    89093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89094 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89095 return self.offset_values(v, n, tf) 
    89096 File
    89097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89098 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89099 values, outside = self.vertex_values(v, xf) 
    89100 File
    89101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89102 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89103 out_of_bounds_list = True) 
    89104 File
    89105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89106 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89107 subregion, step) 
    89108 File
    89109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89110 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89111 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89112 File
    89113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89114 packages/chimerax/map/volume.py", line 1243, in
    89115 matrix_indices_to_xyz_transform 
    89116 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89117 File
    89118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89119 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89120 r = self.subregion(step, subregion) 
    89121 File
    89122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89123 packages/chimerax/map/volume.py", line 1558, in subregion 
    89124 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89125 AttributeError: 'NoneType' object has no attribute 'size' 
    89126  
    89127 AttributeError: 'NoneType' object has no attribute 'size' 
    89128  
    89129 File
    89130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89131 packages/chimerax/map/volume.py", line 1558, in subregion 
    89132 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89133  
    89134 See log for complete Python traceback. 
    89135  
    89136 Traceback (most recent call last): 
    89137 File
    89138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89139 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89140 drew = self.draw_new_frame() 
    89141 File
    89142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89143 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89144 surface.update_clip_caps(view) 
    89145 File
    89146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89147 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89148 subdivision = settings.clipping_cap_subdivision) 
    89149 File
    89150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89151 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89152 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89153 File
    89154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89155 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89156 cm.set_geometry(varray, narray, tarray) 
    89157 File
    89158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89159 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89160 arv() 
    89161 File
    89162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89163 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89164 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89165 File
    89166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89167 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89168 s.vertex_colors = self.vertex_colors(report_stats) 
    89169 File
    89170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89171 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89172 values, outside = self.volume_values() 
    89173 File
    89174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89175 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89176 return self.offset_values(v, n, tf) 
    89177 File
    89178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89179 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89180 values, outside = self.vertex_values(v, xf) 
    89181 File
    89182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89183 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89184 out_of_bounds_list = True) 
    89185 File
    89186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89187 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89188 subregion, step) 
    89189 File
    89190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89191 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89192 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89193 File
    89194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89195 packages/chimerax/map/volume.py", line 1243, in
    89196 matrix_indices_to_xyz_transform 
    89197 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89198 File
    89199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89200 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89201 r = self.subregion(step, subregion) 
    89202 File
    89203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89204 packages/chimerax/map/volume.py", line 1558, in subregion 
    89205 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89206 AttributeError: 'NoneType' object has no attribute 'size' 
    89207  
    89208 AttributeError: 'NoneType' object has no attribute 'size' 
    89209  
    89210 File
    89211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89212 packages/chimerax/map/volume.py", line 1558, in subregion 
    89213 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89214  
    89215 See log for complete Python traceback. 
    89216  
    89217 Traceback (most recent call last): 
    89218 File
    89219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89220 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89221 drew = self.draw_new_frame() 
    89222 File
    89223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89224 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89225 surface.update_clip_caps(view) 
    89226 File
    89227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89228 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89229 subdivision = settings.clipping_cap_subdivision) 
    89230 File
    89231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89232 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89233 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89234 File
    89235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89236 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89237 cm.set_geometry(varray, narray, tarray) 
    89238 File
    89239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89240 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89241 arv() 
    89242 File
    89243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89244 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89245 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89246 File
    89247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89248 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89249 s.vertex_colors = self.vertex_colors(report_stats) 
    89250 File
    89251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89252 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89253 values, outside = self.volume_values() 
    89254 File
    89255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89256 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89257 return self.offset_values(v, n, tf) 
    89258 File
    89259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89260 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89261 values, outside = self.vertex_values(v, xf) 
    89262 File
    89263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89264 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89265 out_of_bounds_list = True) 
    89266 File
    89267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89268 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89269 subregion, step) 
    89270 File
    89271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89272 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89273 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89274 File
    89275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89276 packages/chimerax/map/volume.py", line 1243, in
    89277 matrix_indices_to_xyz_transform 
    89278 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89279 File
    89280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89281 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89282 r = self.subregion(step, subregion) 
    89283 File
    89284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89285 packages/chimerax/map/volume.py", line 1558, in subregion 
    89286 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89287 AttributeError: 'NoneType' object has no attribute 'size' 
    89288  
    89289 AttributeError: 'NoneType' object has no attribute 'size' 
    89290  
    89291 File
    89292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89293 packages/chimerax/map/volume.py", line 1558, in subregion 
    89294 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89295  
    89296 See log for complete Python traceback. 
    89297  
    89298 Traceback (most recent call last): 
    89299 File
    89300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89301 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89302 drew = self.draw_new_frame() 
    89303 File
    89304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89305 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89306 surface.update_clip_caps(view) 
    89307 File
    89308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89309 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89310 subdivision = settings.clipping_cap_subdivision) 
    89311 File
    89312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89313 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89314 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89315 File
    89316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89317 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89318 cm.set_geometry(varray, narray, tarray) 
    89319 File
    89320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89321 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89322 arv() 
    89323 File
    89324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89325 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89326 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89327 File
    89328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89329 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89330 s.vertex_colors = self.vertex_colors(report_stats) 
    89331 File
    89332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89333 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89334 values, outside = self.volume_values() 
    89335 File
    89336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89337 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89338 return self.offset_values(v, n, tf) 
    89339 File
    89340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89341 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89342 values, outside = self.vertex_values(v, xf) 
    89343 File
    89344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89345 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89346 out_of_bounds_list = True) 
    89347 File
    89348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89349 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89350 subregion, step) 
    89351 File
    89352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89353 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89354 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89355 File
    89356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89357 packages/chimerax/map/volume.py", line 1243, in
    89358 matrix_indices_to_xyz_transform 
    89359 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89360 File
    89361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89362 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89363 r = self.subregion(step, subregion) 
    89364 File
    89365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89366 packages/chimerax/map/volume.py", line 1558, in subregion 
    89367 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89368 AttributeError: 'NoneType' object has no attribute 'size' 
    89369  
    89370 AttributeError: 'NoneType' object has no attribute 'size' 
    89371  
    89372 File
    89373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89374 packages/chimerax/map/volume.py", line 1558, in subregion 
    89375 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89376  
    89377 See log for complete Python traceback. 
    89378  
    89379 Traceback (most recent call last): 
    89380 File
    89381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89382 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89383 drew = self.draw_new_frame() 
    89384 File
    89385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89386 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89387 surface.update_clip_caps(view) 
    89388 File
    89389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89390 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89391 subdivision = settings.clipping_cap_subdivision) 
    89392 File
    89393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89394 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89395 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89396 File
    89397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89398 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89399 cm.set_geometry(varray, narray, tarray) 
    89400 File
    89401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89402 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89403 arv() 
    89404 File
    89405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89406 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89407 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89408 File
    89409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89410 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89411 s.vertex_colors = self.vertex_colors(report_stats) 
    89412 File
    89413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89414 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89415 values, outside = self.volume_values() 
    89416 File
    89417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89418 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89419 return self.offset_values(v, n, tf) 
    89420 File
    89421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89422 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89423 values, outside = self.vertex_values(v, xf) 
    89424 File
    89425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89426 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89427 out_of_bounds_list = True) 
    89428 File
    89429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89430 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89431 subregion, step) 
    89432 File
    89433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89434 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89435 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89436 File
    89437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89438 packages/chimerax/map/volume.py", line 1243, in
    89439 matrix_indices_to_xyz_transform 
    89440 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89441 File
    89442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89443 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89444 r = self.subregion(step, subregion) 
    89445 File
    89446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89447 packages/chimerax/map/volume.py", line 1558, in subregion 
    89448 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89449 AttributeError: 'NoneType' object has no attribute 'size' 
    89450  
    89451 AttributeError: 'NoneType' object has no attribute 'size' 
    89452  
    89453 File
    89454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89455 packages/chimerax/map/volume.py", line 1558, in subregion 
    89456 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89457  
    89458 See log for complete Python traceback. 
    89459  
    89460 Traceback (most recent call last): 
    89461 File
    89462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89463 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89464 drew = self.draw_new_frame() 
    89465 File
    89466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89467 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89468 surface.update_clip_caps(view) 
    89469 File
    89470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89471 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89472 subdivision = settings.clipping_cap_subdivision) 
    89473 File
    89474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89475 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89476 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89477 File
    89478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89479 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89480 cm.set_geometry(varray, narray, tarray) 
    89481 File
    89482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89483 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89484 arv() 
    89485 File
    89486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89487 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89488 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89489 File
    89490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89491 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89492 s.vertex_colors = self.vertex_colors(report_stats) 
    89493 File
    89494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89495 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89496 values, outside = self.volume_values() 
    89497 File
    89498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89499 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89500 return self.offset_values(v, n, tf) 
    89501 File
    89502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89503 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89504 values, outside = self.vertex_values(v, xf) 
    89505 File
    89506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89507 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89508 out_of_bounds_list = True) 
    89509 File
    89510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89511 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89512 subregion, step) 
    89513 File
    89514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89515 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89516 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89517 File
    89518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89519 packages/chimerax/map/volume.py", line 1243, in
    89520 matrix_indices_to_xyz_transform 
    89521 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89522 File
    89523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89524 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89525 r = self.subregion(step, subregion) 
    89526 File
    89527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89528 packages/chimerax/map/volume.py", line 1558, in subregion 
    89529 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89530 AttributeError: 'NoneType' object has no attribute 'size' 
    89531  
    89532 AttributeError: 'NoneType' object has no attribute 'size' 
    89533  
    89534 File
    89535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89536 packages/chimerax/map/volume.py", line 1558, in subregion 
    89537 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89538  
    89539 See log for complete Python traceback. 
    89540  
    89541 Traceback (most recent call last): 
    89542 File
    89543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89544 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89545 drew = self.draw_new_frame() 
    89546 File
    89547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89548 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89549 surface.update_clip_caps(view) 
    89550 File
    89551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89552 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89553 subdivision = settings.clipping_cap_subdivision) 
    89554 File
    89555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89556 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89557 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89558 File
    89559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89560 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89561 cm.set_geometry(varray, narray, tarray) 
    89562 File
    89563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89564 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89565 arv() 
    89566 File
    89567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89568 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89569 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89570 File
    89571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89572 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89573 s.vertex_colors = self.vertex_colors(report_stats) 
    89574 File
    89575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89576 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89577 values, outside = self.volume_values() 
    89578 File
    89579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89580 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89581 return self.offset_values(v, n, tf) 
    89582 File
    89583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89584 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89585 values, outside = self.vertex_values(v, xf) 
    89586 File
    89587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89588 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89589 out_of_bounds_list = True) 
    89590 File
    89591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89592 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89593 subregion, step) 
    89594 File
    89595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89596 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89597 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89598 File
    89599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89600 packages/chimerax/map/volume.py", line 1243, in
    89601 matrix_indices_to_xyz_transform 
    89602 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89603 File
    89604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89605 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89606 r = self.subregion(step, subregion) 
    89607 File
    89608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89609 packages/chimerax/map/volume.py", line 1558, in subregion 
    89610 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89611 AttributeError: 'NoneType' object has no attribute 'size' 
    89612  
    89613 AttributeError: 'NoneType' object has no attribute 'size' 
    89614  
    89615 File
    89616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89617 packages/chimerax/map/volume.py", line 1558, in subregion 
    89618 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89619  
    89620 See log for complete Python traceback. 
    89621  
    89622 Traceback (most recent call last): 
    89623 File
    89624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89625 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89626 drew = self.draw_new_frame() 
    89627 File
    89628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89629 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89630 surface.update_clip_caps(view) 
    89631 File
    89632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89633 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89634 subdivision = settings.clipping_cap_subdivision) 
    89635 File
    89636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89637 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89638 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89639 File
    89640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89641 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89642 cm.set_geometry(varray, narray, tarray) 
    89643 File
    89644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89645 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89646 arv() 
    89647 File
    89648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89649 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89650 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89651 File
    89652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89653 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89654 s.vertex_colors = self.vertex_colors(report_stats) 
    89655 File
    89656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89657 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89658 values, outside = self.volume_values() 
    89659 File
    89660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89661 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89662 return self.offset_values(v, n, tf) 
    89663 File
    89664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89665 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89666 values, outside = self.vertex_values(v, xf) 
    89667 File
    89668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89669 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89670 out_of_bounds_list = True) 
    89671 File
    89672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89673 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89674 subregion, step) 
    89675 File
    89676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89677 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89678 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89679 File
    89680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89681 packages/chimerax/map/volume.py", line 1243, in
    89682 matrix_indices_to_xyz_transform 
    89683 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89684 File
    89685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89686 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89687 r = self.subregion(step, subregion) 
    89688 File
    89689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89690 packages/chimerax/map/volume.py", line 1558, in subregion 
    89691 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89692 AttributeError: 'NoneType' object has no attribute 'size' 
    89693  
    89694 AttributeError: 'NoneType' object has no attribute 'size' 
    89695  
    89696 File
    89697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89698 packages/chimerax/map/volume.py", line 1558, in subregion 
    89699 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89700  
    89701 See log for complete Python traceback. 
    89702  
    89703 Traceback (most recent call last): 
    89704 File
    89705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89706 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89707 drew = self.draw_new_frame() 
    89708 File
    89709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89710 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89711 surface.update_clip_caps(view) 
    89712 File
    89713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89714 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89715 subdivision = settings.clipping_cap_subdivision) 
    89716 File
    89717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89718 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89719 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89720 File
    89721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89722 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89723 cm.set_geometry(varray, narray, tarray) 
    89724 File
    89725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89726 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89727 arv() 
    89728 File
    89729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89730 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89731 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89732 File
    89733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89734 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89735 s.vertex_colors = self.vertex_colors(report_stats) 
    89736 File
    89737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89738 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89739 values, outside = self.volume_values() 
    89740 File
    89741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89742 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89743 return self.offset_values(v, n, tf) 
    89744 File
    89745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89746 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89747 values, outside = self.vertex_values(v, xf) 
    89748 File
    89749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89750 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89751 out_of_bounds_list = True) 
    89752 File
    89753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89754 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89755 subregion, step) 
    89756 File
    89757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89758 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89759 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89760 File
    89761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89762 packages/chimerax/map/volume.py", line 1243, in
    89763 matrix_indices_to_xyz_transform 
    89764 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89765 File
    89766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89767 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89768 r = self.subregion(step, subregion) 
    89769 File
    89770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89771 packages/chimerax/map/volume.py", line 1558, in subregion 
    89772 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89773 AttributeError: 'NoneType' object has no attribute 'size' 
    89774  
    89775 AttributeError: 'NoneType' object has no attribute 'size' 
    89776  
    89777 File
    89778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89779 packages/chimerax/map/volume.py", line 1558, in subregion 
    89780 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89781  
    89782 See log for complete Python traceback. 
    89783  
    89784 Traceback (most recent call last): 
    89785 File
    89786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89787 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89788 drew = self.draw_new_frame() 
    89789 File
    89790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89791 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89792 surface.update_clip_caps(view) 
    89793 File
    89794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89795 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89796 subdivision = settings.clipping_cap_subdivision) 
    89797 File
    89798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89799 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89800 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89801 File
    89802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89803 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89804 cm.set_geometry(varray, narray, tarray) 
    89805 File
    89806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89807 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89808 arv() 
    89809 File
    89810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89811 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89812 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89813 File
    89814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89815 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89816 s.vertex_colors = self.vertex_colors(report_stats) 
    89817 File
    89818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89819 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89820 values, outside = self.volume_values() 
    89821 File
    89822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89823 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89824 return self.offset_values(v, n, tf) 
    89825 File
    89826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89827 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89828 values, outside = self.vertex_values(v, xf) 
    89829 File
    89830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89831 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89832 out_of_bounds_list = True) 
    89833 File
    89834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89835 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89836 subregion, step) 
    89837 File
    89838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89839 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89840 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89841 File
    89842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89843 packages/chimerax/map/volume.py", line 1243, in
    89844 matrix_indices_to_xyz_transform 
    89845 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89846 File
    89847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89848 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89849 r = self.subregion(step, subregion) 
    89850 File
    89851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89852 packages/chimerax/map/volume.py", line 1558, in subregion 
    89853 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89854 AttributeError: 'NoneType' object has no attribute 'size' 
    89855  
    89856 AttributeError: 'NoneType' object has no attribute 'size' 
    89857  
    89858 File
    89859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89860 packages/chimerax/map/volume.py", line 1558, in subregion 
    89861 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89862  
    89863 See log for complete Python traceback. 
    89864  
    89865 Traceback (most recent call last): 
    89866 File
    89867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89868 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89869 drew = self.draw_new_frame() 
    89870 File
    89871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89872 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89873 surface.update_clip_caps(view) 
    89874 File
    89875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89876 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89877 subdivision = settings.clipping_cap_subdivision) 
    89878 File
    89879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89880 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89881 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89882 File
    89883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89884 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89885 cm.set_geometry(varray, narray, tarray) 
    89886 File
    89887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89888 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89889 arv() 
    89890 File
    89891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89892 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89893 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89894 File
    89895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89896 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89897 s.vertex_colors = self.vertex_colors(report_stats) 
    89898 File
    89899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89900 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89901 values, outside = self.volume_values() 
    89902 File
    89903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89904 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89905 return self.offset_values(v, n, tf) 
    89906 File
    89907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89908 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89909 values, outside = self.vertex_values(v, xf) 
    89910 File
    89911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89912 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89913 out_of_bounds_list = True) 
    89914 File
    89915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89916 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89917 subregion, step) 
    89918 File
    89919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89920 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    89921 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    89922 File
    89923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89924 packages/chimerax/map/volume.py", line 1243, in
    89925 matrix_indices_to_xyz_transform 
    89926 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    89927 File
    89928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89929 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    89930 r = self.subregion(step, subregion) 
    89931 File
    89932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89933 packages/chimerax/map/volume.py", line 1558, in subregion 
    89934 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89935 AttributeError: 'NoneType' object has no attribute 'size' 
    89936  
    89937 AttributeError: 'NoneType' object has no attribute 'size' 
    89938  
    89939 File
    89940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89941 packages/chimerax/map/volume.py", line 1558, in subregion 
    89942 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    89943  
    89944 See log for complete Python traceback. 
    89945  
    89946 Traceback (most recent call last): 
    89947 File
    89948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89949 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    89950 drew = self.draw_new_frame() 
    89951 File
    89952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89953 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    89954 surface.update_clip_caps(view) 
    89955 File
    89956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89957 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    89958 subdivision = settings.clipping_cap_subdivision) 
    89959 File
    89960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89961 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    89962 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    89963 File
    89964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89965 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    89966 cm.set_geometry(varray, narray, tarray) 
    89967 File
    89968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89969 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    89970 arv() 
    89971 File
    89972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89973 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    89974 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    89975 File
    89976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89977 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    89978 s.vertex_colors = self.vertex_colors(report_stats) 
    89979 File
    89980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89981 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    89982 values, outside = self.volume_values() 
    89983 File
    89984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89985 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    89986 return self.offset_values(v, n, tf) 
    89987 File
    89988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89989 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    89990 values, outside = self.vertex_values(v, xf) 
    89991 File
    89992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89993 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    89994 out_of_bounds_list = True) 
    89995 File
    89996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    89997 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    89998 subregion, step) 
    89999 File
    90000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90001 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90002 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90003 File
    90004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90005 packages/chimerax/map/volume.py", line 1243, in
    90006 matrix_indices_to_xyz_transform 
    90007 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90008 File
    90009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90010 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90011 r = self.subregion(step, subregion) 
    90012 File
    90013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90014 packages/chimerax/map/volume.py", line 1558, in subregion 
    90015 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90016 AttributeError: 'NoneType' object has no attribute 'size' 
    90017  
    90018 AttributeError: 'NoneType' object has no attribute 'size' 
    90019  
    90020 File
    90021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90022 packages/chimerax/map/volume.py", line 1558, in subregion 
    90023 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90024  
    90025 See log for complete Python traceback. 
    90026  
    90027 Traceback (most recent call last): 
    90028 File
    90029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90030 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90031 drew = self.draw_new_frame() 
    90032 File
    90033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90034 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90035 surface.update_clip_caps(view) 
    90036 File
    90037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90038 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90039 subdivision = settings.clipping_cap_subdivision) 
    90040 File
    90041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90042 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90043 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90044 File
    90045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90046 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90047 cm.set_geometry(varray, narray, tarray) 
    90048 File
    90049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90050 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90051 arv() 
    90052 File
    90053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90054 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90055 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90056 File
    90057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90058 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90059 s.vertex_colors = self.vertex_colors(report_stats) 
    90060 File
    90061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90062 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90063 values, outside = self.volume_values() 
    90064 File
    90065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90066 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90067 return self.offset_values(v, n, tf) 
    90068 File
    90069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90070 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90071 values, outside = self.vertex_values(v, xf) 
    90072 File
    90073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90074 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90075 out_of_bounds_list = True) 
    90076 File
    90077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90078 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90079 subregion, step) 
    90080 File
    90081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90082 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90083 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90084 File
    90085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90086 packages/chimerax/map/volume.py", line 1243, in
    90087 matrix_indices_to_xyz_transform 
    90088 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90089 File
    90090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90091 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90092 r = self.subregion(step, subregion) 
    90093 File
    90094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90095 packages/chimerax/map/volume.py", line 1558, in subregion 
    90096 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90097 AttributeError: 'NoneType' object has no attribute 'size' 
    90098  
    90099 AttributeError: 'NoneType' object has no attribute 'size' 
    90100  
    90101 File
    90102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90103 packages/chimerax/map/volume.py", line 1558, in subregion 
    90104 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90105  
    90106 See log for complete Python traceback. 
    90107  
    90108 Traceback (most recent call last): 
    90109 File
    90110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90111 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90112 drew = self.draw_new_frame() 
    90113 File
    90114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90115 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90116 surface.update_clip_caps(view) 
    90117 File
    90118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90119 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90120 subdivision = settings.clipping_cap_subdivision) 
    90121 File
    90122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90123 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90124 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90125 File
    90126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90127 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90128 cm.set_geometry(varray, narray, tarray) 
    90129 File
    90130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90131 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90132 arv() 
    90133 File
    90134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90135 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90136 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90137 File
    90138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90139 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90140 s.vertex_colors = self.vertex_colors(report_stats) 
    90141 File
    90142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90143 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90144 values, outside = self.volume_values() 
    90145 File
    90146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90147 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90148 return self.offset_values(v, n, tf) 
    90149 File
    90150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90151 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90152 values, outside = self.vertex_values(v, xf) 
    90153 File
    90154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90155 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90156 out_of_bounds_list = True) 
    90157 File
    90158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90159 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90160 subregion, step) 
    90161 File
    90162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90163 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90164 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90165 File
    90166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90167 packages/chimerax/map/volume.py", line 1243, in
    90168 matrix_indices_to_xyz_transform 
    90169 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90170 File
    90171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90172 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90173 r = self.subregion(step, subregion) 
    90174 File
    90175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90176 packages/chimerax/map/volume.py", line 1558, in subregion 
    90177 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90178 AttributeError: 'NoneType' object has no attribute 'size' 
    90179  
    90180 AttributeError: 'NoneType' object has no attribute 'size' 
    90181  
    90182 File
    90183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90184 packages/chimerax/map/volume.py", line 1558, in subregion 
    90185 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90186  
    90187 See log for complete Python traceback. 
    90188  
    90189 Traceback (most recent call last): 
    90190 File
    90191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90192 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90193 drew = self.draw_new_frame() 
    90194 File
    90195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90196 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90197 surface.update_clip_caps(view) 
    90198 File
    90199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90200 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90201 subdivision = settings.clipping_cap_subdivision) 
    90202 File
    90203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90204 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90205 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90206 File
    90207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90208 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90209 cm.set_geometry(varray, narray, tarray) 
    90210 File
    90211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90212 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90213 arv() 
    90214 File
    90215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90216 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90217 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90218 File
    90219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90220 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90221 s.vertex_colors = self.vertex_colors(report_stats) 
    90222 File
    90223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90224 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90225 values, outside = self.volume_values() 
    90226 File
    90227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90228 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90229 return self.offset_values(v, n, tf) 
    90230 File
    90231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90232 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90233 values, outside = self.vertex_values(v, xf) 
    90234 File
    90235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90236 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90237 out_of_bounds_list = True) 
    90238 File
    90239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90240 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90241 subregion, step) 
    90242 File
    90243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90244 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90245 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90246 File
    90247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90248 packages/chimerax/map/volume.py", line 1243, in
    90249 matrix_indices_to_xyz_transform 
    90250 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90251 File
    90252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90253 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90254 r = self.subregion(step, subregion) 
    90255 File
    90256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90257 packages/chimerax/map/volume.py", line 1558, in subregion 
    90258 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90259 AttributeError: 'NoneType' object has no attribute 'size' 
    90260  
    90261 AttributeError: 'NoneType' object has no attribute 'size' 
    90262  
    90263 File
    90264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90265 packages/chimerax/map/volume.py", line 1558, in subregion 
    90266 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90267  
    90268 See log for complete Python traceback. 
    90269  
    90270 Traceback (most recent call last): 
    90271 File
    90272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90273 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90274 drew = self.draw_new_frame() 
    90275 File
    90276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90277 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90278 surface.update_clip_caps(view) 
    90279 File
    90280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90281 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90282 subdivision = settings.clipping_cap_subdivision) 
    90283 File
    90284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90285 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90286 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90287 File
    90288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90289 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90290 cm.set_geometry(varray, narray, tarray) 
    90291 File
    90292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90293 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90294 arv() 
    90295 File
    90296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90297 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90298 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90299 File
    90300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90301 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90302 s.vertex_colors = self.vertex_colors(report_stats) 
    90303 File
    90304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90305 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90306 values, outside = self.volume_values() 
    90307 File
    90308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90309 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90310 return self.offset_values(v, n, tf) 
    90311 File
    90312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90313 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90314 values, outside = self.vertex_values(v, xf) 
    90315 File
    90316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90317 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90318 out_of_bounds_list = True) 
    90319 File
    90320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90321 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90322 subregion, step) 
    90323 File
    90324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90325 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90326 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90327 File
    90328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90329 packages/chimerax/map/volume.py", line 1243, in
    90330 matrix_indices_to_xyz_transform 
    90331 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90332 File
    90333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90334 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90335 r = self.subregion(step, subregion) 
    90336 File
    90337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90338 packages/chimerax/map/volume.py", line 1558, in subregion 
    90339 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90340 AttributeError: 'NoneType' object has no attribute 'size' 
    90341  
    90342 AttributeError: 'NoneType' object has no attribute 'size' 
    90343  
    90344 File
    90345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90346 packages/chimerax/map/volume.py", line 1558, in subregion 
    90347 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90348  
    90349 See log for complete Python traceback. 
    90350  
    90351 Traceback (most recent call last): 
    90352 File
    90353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90354 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90355 drew = self.draw_new_frame() 
    90356 File
    90357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90358 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90359 surface.update_clip_caps(view) 
    90360 File
    90361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90362 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90363 subdivision = settings.clipping_cap_subdivision) 
    90364 File
    90365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90366 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90367 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90368 File
    90369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90370 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90371 cm.set_geometry(varray, narray, tarray) 
    90372 File
    90373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90374 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90375 arv() 
    90376 File
    90377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90378 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90379 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90380 File
    90381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90382 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90383 s.vertex_colors = self.vertex_colors(report_stats) 
    90384 File
    90385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90386 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90387 values, outside = self.volume_values() 
    90388 File
    90389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90390 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90391 return self.offset_values(v, n, tf) 
    90392 File
    90393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90394 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90395 values, outside = self.vertex_values(v, xf) 
    90396 File
    90397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90398 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90399 out_of_bounds_list = True) 
    90400 File
    90401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90402 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90403 subregion, step) 
    90404 File
    90405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90406 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90407 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90408 File
    90409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90410 packages/chimerax/map/volume.py", line 1243, in
    90411 matrix_indices_to_xyz_transform 
    90412 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90413 File
    90414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90415 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90416 r = self.subregion(step, subregion) 
    90417 File
    90418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90419 packages/chimerax/map/volume.py", line 1558, in subregion 
    90420 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90421 AttributeError: 'NoneType' object has no attribute 'size' 
    90422  
    90423 AttributeError: 'NoneType' object has no attribute 'size' 
    90424  
    90425 File
    90426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90427 packages/chimerax/map/volume.py", line 1558, in subregion 
    90428 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90429  
    90430 See log for complete Python traceback. 
    90431  
    90432 Traceback (most recent call last): 
    90433 File
    90434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90435 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90436 drew = self.draw_new_frame() 
    90437 File
    90438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90439 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90440 surface.update_clip_caps(view) 
    90441 File
    90442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90443 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90444 subdivision = settings.clipping_cap_subdivision) 
    90445 File
    90446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90447 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90448 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90449 File
    90450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90451 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90452 cm.set_geometry(varray, narray, tarray) 
    90453 File
    90454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90455 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90456 arv() 
    90457 File
    90458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90459 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90460 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90461 File
    90462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90463 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90464 s.vertex_colors = self.vertex_colors(report_stats) 
    90465 File
    90466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90467 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90468 values, outside = self.volume_values() 
    90469 File
    90470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90471 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90472 return self.offset_values(v, n, tf) 
    90473 File
    90474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90475 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90476 values, outside = self.vertex_values(v, xf) 
    90477 File
    90478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90479 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90480 out_of_bounds_list = True) 
    90481 File
    90482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90483 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90484 subregion, step) 
    90485 File
    90486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90487 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90488 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90489 File
    90490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90491 packages/chimerax/map/volume.py", line 1243, in
    90492 matrix_indices_to_xyz_transform 
    90493 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90494 File
    90495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90496 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90497 r = self.subregion(step, subregion) 
    90498 File
    90499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90500 packages/chimerax/map/volume.py", line 1558, in subregion 
    90501 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90502 AttributeError: 'NoneType' object has no attribute 'size' 
    90503  
    90504 AttributeError: 'NoneType' object has no attribute 'size' 
    90505  
    90506 File
    90507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90508 packages/chimerax/map/volume.py", line 1558, in subregion 
    90509 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90510  
    90511 See log for complete Python traceback. 
    90512  
    90513 Traceback (most recent call last): 
    90514 File
    90515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90516 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90517 drew = self.draw_new_frame() 
    90518 File
    90519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90520 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90521 surface.update_clip_caps(view) 
    90522 File
    90523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90524 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90525 subdivision = settings.clipping_cap_subdivision) 
    90526 File
    90527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90528 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90529 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90530 File
    90531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90532 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90533 cm.set_geometry(varray, narray, tarray) 
    90534 File
    90535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90536 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90537 arv() 
    90538 File
    90539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90540 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90541 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90542 File
    90543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90544 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90545 s.vertex_colors = self.vertex_colors(report_stats) 
    90546 File
    90547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90548 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90549 values, outside = self.volume_values() 
    90550 File
    90551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90552 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90553 return self.offset_values(v, n, tf) 
    90554 File
    90555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90556 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90557 values, outside = self.vertex_values(v, xf) 
    90558 File
    90559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90560 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90561 out_of_bounds_list = True) 
    90562 File
    90563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90564 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90565 subregion, step) 
    90566 File
    90567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90568 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90569 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90570 File
    90571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90572 packages/chimerax/map/volume.py", line 1243, in
    90573 matrix_indices_to_xyz_transform 
    90574 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90575 File
    90576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90577 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90578 r = self.subregion(step, subregion) 
    90579 File
    90580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90581 packages/chimerax/map/volume.py", line 1558, in subregion 
    90582 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90583 AttributeError: 'NoneType' object has no attribute 'size' 
    90584  
    90585 AttributeError: 'NoneType' object has no attribute 'size' 
    90586  
    90587 File
    90588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90589 packages/chimerax/map/volume.py", line 1558, in subregion 
    90590 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90591  
    90592 See log for complete Python traceback. 
    90593  
    90594 Traceback (most recent call last): 
    90595 File
    90596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90597 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90598 drew = self.draw_new_frame() 
    90599 File
    90600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90601 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90602 surface.update_clip_caps(view) 
    90603 File
    90604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90605 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90606 subdivision = settings.clipping_cap_subdivision) 
    90607 File
    90608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90609 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90610 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90611 File
    90612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90613 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90614 cm.set_geometry(varray, narray, tarray) 
    90615 File
    90616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90617 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90618 arv() 
    90619 File
    90620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90621 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90622 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90623 File
    90624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90625 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90626 s.vertex_colors = self.vertex_colors(report_stats) 
    90627 File
    90628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90629 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90630 values, outside = self.volume_values() 
    90631 File
    90632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90633 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90634 return self.offset_values(v, n, tf) 
    90635 File
    90636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90637 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90638 values, outside = self.vertex_values(v, xf) 
    90639 File
    90640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90641 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90642 out_of_bounds_list = True) 
    90643 File
    90644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90645 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90646 subregion, step) 
    90647 File
    90648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90649 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90650 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90651 File
    90652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90653 packages/chimerax/map/volume.py", line 1243, in
    90654 matrix_indices_to_xyz_transform 
    90655 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90656 File
    90657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90658 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90659 r = self.subregion(step, subregion) 
    90660 File
    90661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90662 packages/chimerax/map/volume.py", line 1558, in subregion 
    90663 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90664 AttributeError: 'NoneType' object has no attribute 'size' 
    90665  
    90666 AttributeError: 'NoneType' object has no attribute 'size' 
    90667  
    90668 File
    90669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90670 packages/chimerax/map/volume.py", line 1558, in subregion 
    90671 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90672  
    90673 See log for complete Python traceback. 
    90674  
    90675 Traceback (most recent call last): 
    90676 File
    90677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90678 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90679 drew = self.draw_new_frame() 
    90680 File
    90681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90682 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90683 surface.update_clip_caps(view) 
    90684 File
    90685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90686 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90687 subdivision = settings.clipping_cap_subdivision) 
    90688 File
    90689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90690 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90691 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90692 File
    90693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90694 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90695 cm.set_geometry(varray, narray, tarray) 
    90696 File
    90697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90698 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90699 arv() 
    90700 File
    90701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90702 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90703 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90704 File
    90705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90706 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90707 s.vertex_colors = self.vertex_colors(report_stats) 
    90708 File
    90709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90710 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90711 values, outside = self.volume_values() 
    90712 File
    90713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90714 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90715 return self.offset_values(v, n, tf) 
    90716 File
    90717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90718 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90719 values, outside = self.vertex_values(v, xf) 
    90720 File
    90721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90722 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90723 out_of_bounds_list = True) 
    90724 File
    90725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90726 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90727 subregion, step) 
    90728 File
    90729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90730 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90731 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90732 File
    90733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90734 packages/chimerax/map/volume.py", line 1243, in
    90735 matrix_indices_to_xyz_transform 
    90736 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90737 File
    90738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90739 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90740 r = self.subregion(step, subregion) 
    90741 File
    90742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90743 packages/chimerax/map/volume.py", line 1558, in subregion 
    90744 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90745 AttributeError: 'NoneType' object has no attribute 'size' 
    90746  
    90747 AttributeError: 'NoneType' object has no attribute 'size' 
    90748  
    90749 File
    90750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90751 packages/chimerax/map/volume.py", line 1558, in subregion 
    90752 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90753  
    90754 See log for complete Python traceback. 
    90755  
    90756 Traceback (most recent call last): 
    90757 File
    90758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90759 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90760 drew = self.draw_new_frame() 
    90761 File
    90762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90763 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90764 surface.update_clip_caps(view) 
    90765 File
    90766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90767 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90768 subdivision = settings.clipping_cap_subdivision) 
    90769 File
    90770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90771 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90772 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90773 File
    90774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90775 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90776 cm.set_geometry(varray, narray, tarray) 
    90777 File
    90778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90779 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90780 arv() 
    90781 File
    90782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90783 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90784 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90785 File
    90786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90787 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90788 s.vertex_colors = self.vertex_colors(report_stats) 
    90789 File
    90790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90791 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90792 values, outside = self.volume_values() 
    90793 File
    90794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90795 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90796 return self.offset_values(v, n, tf) 
    90797 File
    90798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90799 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90800 values, outside = self.vertex_values(v, xf) 
    90801 File
    90802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90803 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90804 out_of_bounds_list = True) 
    90805 File
    90806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90807 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90808 subregion, step) 
    90809 File
    90810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90811 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90812 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90813 File
    90814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90815 packages/chimerax/map/volume.py", line 1243, in
    90816 matrix_indices_to_xyz_transform 
    90817 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90818 File
    90819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90820 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90821 r = self.subregion(step, subregion) 
    90822 File
    90823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90824 packages/chimerax/map/volume.py", line 1558, in subregion 
    90825 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90826 AttributeError: 'NoneType' object has no attribute 'size' 
    90827  
    90828 AttributeError: 'NoneType' object has no attribute 'size' 
    90829  
    90830 File
    90831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90832 packages/chimerax/map/volume.py", line 1558, in subregion 
    90833 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90834  
    90835 See log for complete Python traceback. 
    90836  
    90837 Traceback (most recent call last): 
    90838 File
    90839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90840 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90841 drew = self.draw_new_frame() 
    90842 File
    90843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90844 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90845 surface.update_clip_caps(view) 
    90846 File
    90847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90848 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90849 subdivision = settings.clipping_cap_subdivision) 
    90850 File
    90851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90852 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90853 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90854 File
    90855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90856 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90857 cm.set_geometry(varray, narray, tarray) 
    90858 File
    90859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90860 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90861 arv() 
    90862 File
    90863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90864 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90865 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90866 File
    90867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90868 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90869 s.vertex_colors = self.vertex_colors(report_stats) 
    90870 File
    90871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90872 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90873 values, outside = self.volume_values() 
    90874 File
    90875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90876 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90877 return self.offset_values(v, n, tf) 
    90878 File
    90879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90880 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90881 values, outside = self.vertex_values(v, xf) 
    90882 File
    90883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90884 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90885 out_of_bounds_list = True) 
    90886 File
    90887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90888 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90889 subregion, step) 
    90890 File
    90891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90892 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90893 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90894 File
    90895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90896 packages/chimerax/map/volume.py", line 1243, in
    90897 matrix_indices_to_xyz_transform 
    90898 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90899 File
    90900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90901 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90902 r = self.subregion(step, subregion) 
    90903 File
    90904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90905 packages/chimerax/map/volume.py", line 1558, in subregion 
    90906 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90907 AttributeError: 'NoneType' object has no attribute 'size' 
    90908  
    90909 AttributeError: 'NoneType' object has no attribute 'size' 
    90910  
    90911 File
    90912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90913 packages/chimerax/map/volume.py", line 1558, in subregion 
    90914 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90915  
    90916 See log for complete Python traceback. 
    90917  
    90918 Traceback (most recent call last): 
    90919 File
    90920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90921 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    90922 drew = self.draw_new_frame() 
    90923 File
    90924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90925 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    90926 surface.update_clip_caps(view) 
    90927 File
    90928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90929 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    90930 subdivision = settings.clipping_cap_subdivision) 
    90931 File
    90932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90933 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    90934 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    90935 File
    90936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90937 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    90938 cm.set_geometry(varray, narray, tarray) 
    90939 File
    90940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90941 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    90942 arv() 
    90943 File
    90944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90945 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    90946 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    90947 File
    90948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90949 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    90950 s.vertex_colors = self.vertex_colors(report_stats) 
    90951 File
    90952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90953 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    90954 values, outside = self.volume_values() 
    90955 File
    90956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90957 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    90958 return self.offset_values(v, n, tf) 
    90959 File
    90960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90961 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    90962 values, outside = self.vertex_values(v, xf) 
    90963 File
    90964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90965 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    90966 out_of_bounds_list = True) 
    90967 File
    90968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90969 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    90970 subregion, step) 
    90971 File
    90972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90973 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    90974 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    90975 File
    90976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90977 packages/chimerax/map/volume.py", line 1243, in
    90978 matrix_indices_to_xyz_transform 
    90979 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    90980 File
    90981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90982 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    90983 r = self.subregion(step, subregion) 
    90984 File
    90985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90986 packages/chimerax/map/volume.py", line 1558, in subregion 
    90987 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90988 AttributeError: 'NoneType' object has no attribute 'size' 
    90989  
    90990 AttributeError: 'NoneType' object has no attribute 'size' 
    90991  
    90992 File
    90993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    90994 packages/chimerax/map/volume.py", line 1558, in subregion 
    90995 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    90996  
    90997 See log for complete Python traceback. 
    90998  
    90999 Traceback (most recent call last): 
    91000 File
    91001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91002 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91003 drew = self.draw_new_frame() 
    91004 File
    91005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91006 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91007 surface.update_clip_caps(view) 
    91008 File
    91009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91010 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91011 subdivision = settings.clipping_cap_subdivision) 
    91012 File
    91013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91014 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91015 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91016 File
    91017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91018 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91019 cm.set_geometry(varray, narray, tarray) 
    91020 File
    91021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91022 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91023 arv() 
    91024 File
    91025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91026 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91027 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91028 File
    91029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91030 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91031 s.vertex_colors = self.vertex_colors(report_stats) 
    91032 File
    91033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91034 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91035 values, outside = self.volume_values() 
    91036 File
    91037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91038 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91039 return self.offset_values(v, n, tf) 
    91040 File
    91041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91042 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91043 values, outside = self.vertex_values(v, xf) 
    91044 File
    91045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91046 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91047 out_of_bounds_list = True) 
    91048 File
    91049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91050 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91051 subregion, step) 
    91052 File
    91053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91054 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91055 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91056 File
    91057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91058 packages/chimerax/map/volume.py", line 1243, in
    91059 matrix_indices_to_xyz_transform 
    91060 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91061 File
    91062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91063 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91064 r = self.subregion(step, subregion) 
    91065 File
    91066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91067 packages/chimerax/map/volume.py", line 1558, in subregion 
    91068 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91069 AttributeError: 'NoneType' object has no attribute 'size' 
    91070  
    91071 AttributeError: 'NoneType' object has no attribute 'size' 
    91072  
    91073 File
    91074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91075 packages/chimerax/map/volume.py", line 1558, in subregion 
    91076 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91077  
    91078 See log for complete Python traceback. 
    91079  
    91080 Traceback (most recent call last): 
    91081 File
    91082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91083 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91084 drew = self.draw_new_frame() 
    91085 File
    91086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91087 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91088 surface.update_clip_caps(view) 
    91089 File
    91090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91091 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91092 subdivision = settings.clipping_cap_subdivision) 
    91093 File
    91094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91095 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91096 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91097 File
    91098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91099 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91100 cm.set_geometry(varray, narray, tarray) 
    91101 File
    91102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91103 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91104 arv() 
    91105 File
    91106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91107 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91108 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91109 File
    91110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91111 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91112 s.vertex_colors = self.vertex_colors(report_stats) 
    91113 File
    91114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91115 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91116 values, outside = self.volume_values() 
    91117 File
    91118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91119 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91120 return self.offset_values(v, n, tf) 
    91121 File
    91122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91123 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91124 values, outside = self.vertex_values(v, xf) 
    91125 File
    91126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91127 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91128 out_of_bounds_list = True) 
    91129 File
    91130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91131 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91132 subregion, step) 
    91133 File
    91134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91135 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91136 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91137 File
    91138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91139 packages/chimerax/map/volume.py", line 1243, in
    91140 matrix_indices_to_xyz_transform 
    91141 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91142 File
    91143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91144 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91145 r = self.subregion(step, subregion) 
    91146 File
    91147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91148 packages/chimerax/map/volume.py", line 1558, in subregion 
    91149 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91150 AttributeError: 'NoneType' object has no attribute 'size' 
    91151  
    91152 AttributeError: 'NoneType' object has no attribute 'size' 
    91153  
    91154 File
    91155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91156 packages/chimerax/map/volume.py", line 1558, in subregion 
    91157 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91158  
    91159 See log for complete Python traceback. 
    91160  
    91161 Traceback (most recent call last): 
    91162 File
    91163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91164 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91165 drew = self.draw_new_frame() 
    91166 File
    91167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91168 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91169 surface.update_clip_caps(view) 
    91170 File
    91171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91172 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91173 subdivision = settings.clipping_cap_subdivision) 
    91174 File
    91175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91176 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91177 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91178 File
    91179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91180 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91181 cm.set_geometry(varray, narray, tarray) 
    91182 File
    91183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91184 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91185 arv() 
    91186 File
    91187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91188 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91189 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91190 File
    91191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91192 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91193 s.vertex_colors = self.vertex_colors(report_stats) 
    91194 File
    91195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91196 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91197 values, outside = self.volume_values() 
    91198 File
    91199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91200 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91201 return self.offset_values(v, n, tf) 
    91202 File
    91203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91204 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91205 values, outside = self.vertex_values(v, xf) 
    91206 File
    91207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91208 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91209 out_of_bounds_list = True) 
    91210 File
    91211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91212 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91213 subregion, step) 
    91214 File
    91215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91216 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91217 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91218 File
    91219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91220 packages/chimerax/map/volume.py", line 1243, in
    91221 matrix_indices_to_xyz_transform 
    91222 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91223 File
    91224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91225 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91226 r = self.subregion(step, subregion) 
    91227 File
    91228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91229 packages/chimerax/map/volume.py", line 1558, in subregion 
    91230 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91231 AttributeError: 'NoneType' object has no attribute 'size' 
    91232  
    91233 AttributeError: 'NoneType' object has no attribute 'size' 
    91234  
    91235 File
    91236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91237 packages/chimerax/map/volume.py", line 1558, in subregion 
    91238 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91239  
    91240 See log for complete Python traceback. 
    91241  
    91242 Traceback (most recent call last): 
    91243 File
    91244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91245 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91246 drew = self.draw_new_frame() 
    91247 File
    91248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91249 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91250 surface.update_clip_caps(view) 
    91251 File
    91252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91253 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91254 subdivision = settings.clipping_cap_subdivision) 
    91255 File
    91256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91257 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91258 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91259 File
    91260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91261 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91262 cm.set_geometry(varray, narray, tarray) 
    91263 File
    91264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91265 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91266 arv() 
    91267 File
    91268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91269 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91270 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91271 File
    91272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91273 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91274 s.vertex_colors = self.vertex_colors(report_stats) 
    91275 File
    91276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91277 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91278 values, outside = self.volume_values() 
    91279 File
    91280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91281 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91282 return self.offset_values(v, n, tf) 
    91283 File
    91284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91285 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91286 values, outside = self.vertex_values(v, xf) 
    91287 File
    91288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91289 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91290 out_of_bounds_list = True) 
    91291 File
    91292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91293 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91294 subregion, step) 
    91295 File
    91296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91297 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91298 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91299 File
    91300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91301 packages/chimerax/map/volume.py", line 1243, in
    91302 matrix_indices_to_xyz_transform 
    91303 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91304 File
    91305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91306 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91307 r = self.subregion(step, subregion) 
    91308 File
    91309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91310 packages/chimerax/map/volume.py", line 1558, in subregion 
    91311 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91312 AttributeError: 'NoneType' object has no attribute 'size' 
    91313  
    91314 AttributeError: 'NoneType' object has no attribute 'size' 
    91315  
    91316 File
    91317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91318 packages/chimerax/map/volume.py", line 1558, in subregion 
    91319 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91320  
    91321 See log for complete Python traceback. 
    91322  
    91323 Traceback (most recent call last): 
    91324 File
    91325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91326 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91327 drew = self.draw_new_frame() 
    91328 File
    91329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91330 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91331 surface.update_clip_caps(view) 
    91332 File
    91333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91334 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91335 subdivision = settings.clipping_cap_subdivision) 
    91336 File
    91337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91338 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91339 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91340 File
    91341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91342 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91343 cm.set_geometry(varray, narray, tarray) 
    91344 File
    91345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91346 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91347 arv() 
    91348 File
    91349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91350 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91351 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91352 File
    91353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91354 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91355 s.vertex_colors = self.vertex_colors(report_stats) 
    91356 File
    91357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91358 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91359 values, outside = self.volume_values() 
    91360 File
    91361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91362 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91363 return self.offset_values(v, n, tf) 
    91364 File
    91365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91366 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91367 values, outside = self.vertex_values(v, xf) 
    91368 File
    91369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91370 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91371 out_of_bounds_list = True) 
    91372 File
    91373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91374 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91375 subregion, step) 
    91376 File
    91377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91378 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91379 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91380 File
    91381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91382 packages/chimerax/map/volume.py", line 1243, in
    91383 matrix_indices_to_xyz_transform 
    91384 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91385 File
    91386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91387 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91388 r = self.subregion(step, subregion) 
    91389 File
    91390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91391 packages/chimerax/map/volume.py", line 1558, in subregion 
    91392 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91393 AttributeError: 'NoneType' object has no attribute 'size' 
    91394  
    91395 AttributeError: 'NoneType' object has no attribute 'size' 
    91396  
    91397 File
    91398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91399 packages/chimerax/map/volume.py", line 1558, in subregion 
    91400 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91401  
    91402 See log for complete Python traceback. 
    91403  
    91404 Traceback (most recent call last): 
    91405 File
    91406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91407 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91408 drew = self.draw_new_frame() 
    91409 File
    91410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91411 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91412 surface.update_clip_caps(view) 
    91413 File
    91414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91415 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91416 subdivision = settings.clipping_cap_subdivision) 
    91417 File
    91418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91419 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91420 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91421 File
    91422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91423 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91424 cm.set_geometry(varray, narray, tarray) 
    91425 File
    91426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91427 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91428 arv() 
    91429 File
    91430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91431 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91432 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91433 File
    91434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91435 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91436 s.vertex_colors = self.vertex_colors(report_stats) 
    91437 File
    91438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91439 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91440 values, outside = self.volume_values() 
    91441 File
    91442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91443 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91444 return self.offset_values(v, n, tf) 
    91445 File
    91446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91447 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91448 values, outside = self.vertex_values(v, xf) 
    91449 File
    91450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91451 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91452 out_of_bounds_list = True) 
    91453 File
    91454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91455 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91456 subregion, step) 
    91457 File
    91458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91459 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91460 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91461 File
    91462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91463 packages/chimerax/map/volume.py", line 1243, in
    91464 matrix_indices_to_xyz_transform 
    91465 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91466 File
    91467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91468 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91469 r = self.subregion(step, subregion) 
    91470 File
    91471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91472 packages/chimerax/map/volume.py", line 1558, in subregion 
    91473 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91474 AttributeError: 'NoneType' object has no attribute 'size' 
    91475  
    91476 AttributeError: 'NoneType' object has no attribute 'size' 
    91477  
    91478 File
    91479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91480 packages/chimerax/map/volume.py", line 1558, in subregion 
    91481 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91482  
    91483 See log for complete Python traceback. 
    91484  
    91485 Traceback (most recent call last): 
    91486 File
    91487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91488 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91489 drew = self.draw_new_frame() 
    91490 File
    91491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91492 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91493 surface.update_clip_caps(view) 
    91494 File
    91495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91496 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91497 subdivision = settings.clipping_cap_subdivision) 
    91498 File
    91499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91500 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91501 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91502 File
    91503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91504 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91505 cm.set_geometry(varray, narray, tarray) 
    91506 File
    91507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91508 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91509 arv() 
    91510 File
    91511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91512 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91513 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91514 File
    91515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91516 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91517 s.vertex_colors = self.vertex_colors(report_stats) 
    91518 File
    91519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91520 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91521 values, outside = self.volume_values() 
    91522 File
    91523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91524 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91525 return self.offset_values(v, n, tf) 
    91526 File
    91527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91528 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91529 values, outside = self.vertex_values(v, xf) 
    91530 File
    91531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91532 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91533 out_of_bounds_list = True) 
    91534 File
    91535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91536 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91537 subregion, step) 
    91538 File
    91539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91540 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91541 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91542 File
    91543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91544 packages/chimerax/map/volume.py", line 1243, in
    91545 matrix_indices_to_xyz_transform 
    91546 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91547 File
    91548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91549 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91550 r = self.subregion(step, subregion) 
    91551 File
    91552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91553 packages/chimerax/map/volume.py", line 1558, in subregion 
    91554 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91555 AttributeError: 'NoneType' object has no attribute 'size' 
    91556  
    91557 AttributeError: 'NoneType' object has no attribute 'size' 
    91558  
    91559 File
    91560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91561 packages/chimerax/map/volume.py", line 1558, in subregion 
    91562 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91563  
    91564 See log for complete Python traceback. 
    91565  
    91566 Traceback (most recent call last): 
    91567 File
    91568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91569 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91570 drew = self.draw_new_frame() 
    91571 File
    91572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91573 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91574 surface.update_clip_caps(view) 
    91575 File
    91576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91577 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91578 subdivision = settings.clipping_cap_subdivision) 
    91579 File
    91580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91581 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91582 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91583 File
    91584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91585 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91586 cm.set_geometry(varray, narray, tarray) 
    91587 File
    91588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91589 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91590 arv() 
    91591 File
    91592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91593 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91594 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91595 File
    91596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91597 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91598 s.vertex_colors = self.vertex_colors(report_stats) 
    91599 File
    91600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91601 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91602 values, outside = self.volume_values() 
    91603 File
    91604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91605 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91606 return self.offset_values(v, n, tf) 
    91607 File
    91608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91609 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91610 values, outside = self.vertex_values(v, xf) 
    91611 File
    91612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91613 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91614 out_of_bounds_list = True) 
    91615 File
    91616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91617 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91618 subregion, step) 
    91619 File
    91620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91621 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91622 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91623 File
    91624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91625 packages/chimerax/map/volume.py", line 1243, in
    91626 matrix_indices_to_xyz_transform 
    91627 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91628 File
    91629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91630 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91631 r = self.subregion(step, subregion) 
    91632 File
    91633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91634 packages/chimerax/map/volume.py", line 1558, in subregion 
    91635 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91636 AttributeError: 'NoneType' object has no attribute 'size' 
    91637  
    91638 AttributeError: 'NoneType' object has no attribute 'size' 
    91639  
    91640 File
    91641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91642 packages/chimerax/map/volume.py", line 1558, in subregion 
    91643 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91644  
    91645 See log for complete Python traceback. 
    91646  
    91647 Traceback (most recent call last): 
    91648 File
    91649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91650 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91651 drew = self.draw_new_frame() 
    91652 File
    91653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91654 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91655 surface.update_clip_caps(view) 
    91656 File
    91657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91658 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91659 subdivision = settings.clipping_cap_subdivision) 
    91660 File
    91661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91662 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91663 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91664 File
    91665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91666 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91667 cm.set_geometry(varray, narray, tarray) 
    91668 File
    91669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91670 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91671 arv() 
    91672 File
    91673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91674 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91675 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91676 File
    91677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91678 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91679 s.vertex_colors = self.vertex_colors(report_stats) 
    91680 File
    91681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91682 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91683 values, outside = self.volume_values() 
    91684 File
    91685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91686 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91687 return self.offset_values(v, n, tf) 
    91688 File
    91689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91690 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91691 values, outside = self.vertex_values(v, xf) 
    91692 File
    91693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91694 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91695 out_of_bounds_list = True) 
    91696 File
    91697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91698 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91699 subregion, step) 
    91700 File
    91701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91702 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91703 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91704 File
    91705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91706 packages/chimerax/map/volume.py", line 1243, in
    91707 matrix_indices_to_xyz_transform 
    91708 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91709 File
    91710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91711 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91712 r = self.subregion(step, subregion) 
    91713 File
    91714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91715 packages/chimerax/map/volume.py", line 1558, in subregion 
    91716 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91717 AttributeError: 'NoneType' object has no attribute 'size' 
    91718  
    91719 AttributeError: 'NoneType' object has no attribute 'size' 
    91720  
    91721 File
    91722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91723 packages/chimerax/map/volume.py", line 1558, in subregion 
    91724 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91725  
    91726 See log for complete Python traceback. 
    91727  
    91728 Traceback (most recent call last): 
    91729 File
    91730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91731 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91732 drew = self.draw_new_frame() 
    91733 File
    91734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91735 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91736 surface.update_clip_caps(view) 
    91737 File
    91738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91739 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91740 subdivision = settings.clipping_cap_subdivision) 
    91741 File
    91742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91743 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91744 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91745 File
    91746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91747 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91748 cm.set_geometry(varray, narray, tarray) 
    91749 File
    91750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91751 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91752 arv() 
    91753 File
    91754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91755 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91756 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91757 File
    91758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91759 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91760 s.vertex_colors = self.vertex_colors(report_stats) 
    91761 File
    91762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91763 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91764 values, outside = self.volume_values() 
    91765 File
    91766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91767 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91768 return self.offset_values(v, n, tf) 
    91769 File
    91770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91771 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91772 values, outside = self.vertex_values(v, xf) 
    91773 File
    91774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91775 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91776 out_of_bounds_list = True) 
    91777 File
    91778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91779 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91780 subregion, step) 
    91781 File
    91782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91783 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91784 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91785 File
    91786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91787 packages/chimerax/map/volume.py", line 1243, in
    91788 matrix_indices_to_xyz_transform 
    91789 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91790 File
    91791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91792 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91793 r = self.subregion(step, subregion) 
    91794 File
    91795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91796 packages/chimerax/map/volume.py", line 1558, in subregion 
    91797 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91798 AttributeError: 'NoneType' object has no attribute 'size' 
    91799  
    91800 AttributeError: 'NoneType' object has no attribute 'size' 
    91801  
    91802 File
    91803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91804 packages/chimerax/map/volume.py", line 1558, in subregion 
    91805 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91806  
    91807 See log for complete Python traceback. 
    91808  
    91809 Traceback (most recent call last): 
    91810 File
    91811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91812 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91813 drew = self.draw_new_frame() 
    91814 File
    91815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91816 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91817 surface.update_clip_caps(view) 
    91818 File
    91819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91820 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91821 subdivision = settings.clipping_cap_subdivision) 
    91822 File
    91823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91824 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91825 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91826 File
    91827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91828 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91829 cm.set_geometry(varray, narray, tarray) 
    91830 File
    91831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91832 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91833 arv() 
    91834 File
    91835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91836 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91837 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91838 File
    91839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91840 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91841 s.vertex_colors = self.vertex_colors(report_stats) 
    91842 File
    91843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91844 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91845 values, outside = self.volume_values() 
    91846 File
    91847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91848 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91849 return self.offset_values(v, n, tf) 
    91850 File
    91851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91852 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91853 values, outside = self.vertex_values(v, xf) 
    91854 File
    91855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91856 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91857 out_of_bounds_list = True) 
    91858 File
    91859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91860 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91861 subregion, step) 
    91862 File
    91863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91864 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91865 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91866 File
    91867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91868 packages/chimerax/map/volume.py", line 1243, in
    91869 matrix_indices_to_xyz_transform 
    91870 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91871 File
    91872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91873 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91874 r = self.subregion(step, subregion) 
    91875 File
    91876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91877 packages/chimerax/map/volume.py", line 1558, in subregion 
    91878 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91879 AttributeError: 'NoneType' object has no attribute 'size' 
    91880  
    91881 AttributeError: 'NoneType' object has no attribute 'size' 
    91882  
    91883 File
    91884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91885 packages/chimerax/map/volume.py", line 1558, in subregion 
    91886 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91887  
    91888 See log for complete Python traceback. 
    91889  
    91890 Traceback (most recent call last): 
    91891 File
    91892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91893 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91894 drew = self.draw_new_frame() 
    91895 File
    91896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91897 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91898 surface.update_clip_caps(view) 
    91899 File
    91900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91901 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91902 subdivision = settings.clipping_cap_subdivision) 
    91903 File
    91904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91905 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91906 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91907 File
    91908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91909 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91910 cm.set_geometry(varray, narray, tarray) 
    91911 File
    91912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91913 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91914 arv() 
    91915 File
    91916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91917 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91918 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    91919 File
    91920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91921 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    91922 s.vertex_colors = self.vertex_colors(report_stats) 
    91923 File
    91924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91925 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    91926 values, outside = self.volume_values() 
    91927 File
    91928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91929 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    91930 return self.offset_values(v, n, tf) 
    91931 File
    91932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91933 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    91934 values, outside = self.vertex_values(v, xf) 
    91935 File
    91936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91937 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    91938 out_of_bounds_list = True) 
    91939 File
    91940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91941 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    91942 subregion, step) 
    91943 File
    91944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91945 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    91946 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    91947 File
    91948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91949 packages/chimerax/map/volume.py", line 1243, in
    91950 matrix_indices_to_xyz_transform 
    91951 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    91952 File
    91953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91954 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    91955 r = self.subregion(step, subregion) 
    91956 File
    91957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91958 packages/chimerax/map/volume.py", line 1558, in subregion 
    91959 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91960 AttributeError: 'NoneType' object has no attribute 'size' 
    91961  
    91962 AttributeError: 'NoneType' object has no attribute 'size' 
    91963  
    91964 File
    91965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91966 packages/chimerax/map/volume.py", line 1558, in subregion 
    91967 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    91968  
    91969 See log for complete Python traceback. 
    91970  
    91971 Traceback (most recent call last): 
    91972 File
    91973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91974 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    91975 drew = self.draw_new_frame() 
    91976 File
    91977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91978 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    91979 surface.update_clip_caps(view) 
    91980 File
    91981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91982 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    91983 subdivision = settings.clipping_cap_subdivision) 
    91984 File
    91985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91986 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    91987 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    91988 File
    91989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91990 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    91991 cm.set_geometry(varray, narray, tarray) 
    91992 File
    91993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91994 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    91995 arv() 
    91996 File
    91997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    91998 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    91999 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92000 File
    92001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92002 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92003 s.vertex_colors = self.vertex_colors(report_stats) 
    92004 File
    92005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92006 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92007 values, outside = self.volume_values() 
    92008 File
    92009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92010 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92011 return self.offset_values(v, n, tf) 
    92012 File
    92013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92014 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92015 values, outside = self.vertex_values(v, xf) 
    92016 File
    92017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92018 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92019 out_of_bounds_list = True) 
    92020 File
    92021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92022 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92023 subregion, step) 
    92024 File
    92025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92026 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92027 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92028 File
    92029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92030 packages/chimerax/map/volume.py", line 1243, in
    92031 matrix_indices_to_xyz_transform 
    92032 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92033 File
    92034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92035 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92036 r = self.subregion(step, subregion) 
    92037 File
    92038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92039 packages/chimerax/map/volume.py", line 1558, in subregion 
    92040 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92041 AttributeError: 'NoneType' object has no attribute 'size' 
    92042  
    92043 AttributeError: 'NoneType' object has no attribute 'size' 
    92044  
    92045 File
    92046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92047 packages/chimerax/map/volume.py", line 1558, in subregion 
    92048 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92049  
    92050 See log for complete Python traceback. 
    92051  
    92052 Traceback (most recent call last): 
    92053 File
    92054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92055 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92056 drew = self.draw_new_frame() 
    92057 File
    92058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92059 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92060 surface.update_clip_caps(view) 
    92061 File
    92062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92063 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92064 subdivision = settings.clipping_cap_subdivision) 
    92065 File
    92066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92067 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92068 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92069 File
    92070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92071 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92072 cm.set_geometry(varray, narray, tarray) 
    92073 File
    92074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92075 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92076 arv() 
    92077 File
    92078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92079 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92080 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92081 File
    92082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92083 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92084 s.vertex_colors = self.vertex_colors(report_stats) 
    92085 File
    92086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92087 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92088 values, outside = self.volume_values() 
    92089 File
    92090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92091 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92092 return self.offset_values(v, n, tf) 
    92093 File
    92094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92095 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92096 values, outside = self.vertex_values(v, xf) 
    92097 File
    92098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92099 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92100 out_of_bounds_list = True) 
    92101 File
    92102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92103 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92104 subregion, step) 
    92105 File
    92106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92107 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92108 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92109 File
    92110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92111 packages/chimerax/map/volume.py", line 1243, in
    92112 matrix_indices_to_xyz_transform 
    92113 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92114 File
    92115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92116 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92117 r = self.subregion(step, subregion) 
    92118 File
    92119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92120 packages/chimerax/map/volume.py", line 1558, in subregion 
    92121 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92122 AttributeError: 'NoneType' object has no attribute 'size' 
    92123  
    92124 AttributeError: 'NoneType' object has no attribute 'size' 
    92125  
    92126 File
    92127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92128 packages/chimerax/map/volume.py", line 1558, in subregion 
    92129 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92130  
    92131 See log for complete Python traceback. 
    92132  
    92133 Traceback (most recent call last): 
    92134 File
    92135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92136 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92137 drew = self.draw_new_frame() 
    92138 File
    92139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92140 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92141 surface.update_clip_caps(view) 
    92142 File
    92143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92144 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92145 subdivision = settings.clipping_cap_subdivision) 
    92146 File
    92147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92148 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92149 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92150 File
    92151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92152 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92153 cm.set_geometry(varray, narray, tarray) 
    92154 File
    92155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92156 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92157 arv() 
    92158 File
    92159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92160 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92161 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92162 File
    92163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92164 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92165 s.vertex_colors = self.vertex_colors(report_stats) 
    92166 File
    92167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92168 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92169 values, outside = self.volume_values() 
    92170 File
    92171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92172 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92173 return self.offset_values(v, n, tf) 
    92174 File
    92175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92176 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92177 values, outside = self.vertex_values(v, xf) 
    92178 File
    92179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92180 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92181 out_of_bounds_list = True) 
    92182 File
    92183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92184 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92185 subregion, step) 
    92186 File
    92187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92188 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92189 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92190 File
    92191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92192 packages/chimerax/map/volume.py", line 1243, in
    92193 matrix_indices_to_xyz_transform 
    92194 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92195 File
    92196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92197 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92198 r = self.subregion(step, subregion) 
    92199 File
    92200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92201 packages/chimerax/map/volume.py", line 1558, in subregion 
    92202 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92203 AttributeError: 'NoneType' object has no attribute 'size' 
    92204  
    92205 AttributeError: 'NoneType' object has no attribute 'size' 
    92206  
    92207 File
    92208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92209 packages/chimerax/map/volume.py", line 1558, in subregion 
    92210 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92211  
    92212 See log for complete Python traceback. 
    92213  
    92214 Traceback (most recent call last): 
    92215 File
    92216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92217 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92218 drew = self.draw_new_frame() 
    92219 File
    92220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92221 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92222 surface.update_clip_caps(view) 
    92223 File
    92224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92225 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92226 subdivision = settings.clipping_cap_subdivision) 
    92227 File
    92228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92229 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92230 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92231 File
    92232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92233 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92234 cm.set_geometry(varray, narray, tarray) 
    92235 File
    92236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92237 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92238 arv() 
    92239 File
    92240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92241 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92242 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92243 File
    92244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92245 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92246 s.vertex_colors = self.vertex_colors(report_stats) 
    92247 File
    92248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92249 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92250 values, outside = self.volume_values() 
    92251 File
    92252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92253 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92254 return self.offset_values(v, n, tf) 
    92255 File
    92256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92257 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92258 values, outside = self.vertex_values(v, xf) 
    92259 File
    92260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92261 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92262 out_of_bounds_list = True) 
    92263 File
    92264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92265 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92266 subregion, step) 
    92267 File
    92268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92269 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92270 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92271 File
    92272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92273 packages/chimerax/map/volume.py", line 1243, in
    92274 matrix_indices_to_xyz_transform 
    92275 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92276 File
    92277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92278 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92279 r = self.subregion(step, subregion) 
    92280 File
    92281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92282 packages/chimerax/map/volume.py", line 1558, in subregion 
    92283 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92284 AttributeError: 'NoneType' object has no attribute 'size' 
    92285  
    92286 AttributeError: 'NoneType' object has no attribute 'size' 
    92287  
    92288 File
    92289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92290 packages/chimerax/map/volume.py", line 1558, in subregion 
    92291 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92292  
    92293 See log for complete Python traceback. 
    92294  
    92295 Traceback (most recent call last): 
    92296 File
    92297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92298 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92299 drew = self.draw_new_frame() 
    92300 File
    92301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92302 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92303 surface.update_clip_caps(view) 
    92304 File
    92305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92306 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92307 subdivision = settings.clipping_cap_subdivision) 
    92308 File
    92309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92310 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92311 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92312 File
    92313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92314 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92315 cm.set_geometry(varray, narray, tarray) 
    92316 File
    92317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92318 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92319 arv() 
    92320 File
    92321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92322 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92323 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92324 File
    92325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92326 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92327 s.vertex_colors = self.vertex_colors(report_stats) 
    92328 File
    92329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92330 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92331 values, outside = self.volume_values() 
    92332 File
    92333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92334 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92335 return self.offset_values(v, n, tf) 
    92336 File
    92337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92338 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92339 values, outside = self.vertex_values(v, xf) 
    92340 File
    92341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92342 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92343 out_of_bounds_list = True) 
    92344 File
    92345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92346 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92347 subregion, step) 
    92348 File
    92349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92350 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92351 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92352 File
    92353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92354 packages/chimerax/map/volume.py", line 1243, in
    92355 matrix_indices_to_xyz_transform 
    92356 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92357 File
    92358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92359 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92360 r = self.subregion(step, subregion) 
    92361 File
    92362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92363 packages/chimerax/map/volume.py", line 1558, in subregion 
    92364 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92365 AttributeError: 'NoneType' object has no attribute 'size' 
    92366  
    92367 AttributeError: 'NoneType' object has no attribute 'size' 
    92368  
    92369 File
    92370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92371 packages/chimerax/map/volume.py", line 1558, in subregion 
    92372 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92373  
    92374 See log for complete Python traceback. 
    92375  
    92376 Traceback (most recent call last): 
    92377 File
    92378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92379 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92380 drew = self.draw_new_frame() 
    92381 File
    92382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92383 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92384 surface.update_clip_caps(view) 
    92385 File
    92386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92387 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92388 subdivision = settings.clipping_cap_subdivision) 
    92389 File
    92390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92391 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92392 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92393 File
    92394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92395 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92396 cm.set_geometry(varray, narray, tarray) 
    92397 File
    92398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92399 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92400 arv() 
    92401 File
    92402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92403 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92404 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92405 File
    92406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92407 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92408 s.vertex_colors = self.vertex_colors(report_stats) 
    92409 File
    92410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92411 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92412 values, outside = self.volume_values() 
    92413 File
    92414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92415 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92416 return self.offset_values(v, n, tf) 
    92417 File
    92418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92419 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92420 values, outside = self.vertex_values(v, xf) 
    92421 File
    92422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92423 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92424 out_of_bounds_list = True) 
    92425 File
    92426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92427 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92428 subregion, step) 
    92429 File
    92430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92431 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92432 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92433 File
    92434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92435 packages/chimerax/map/volume.py", line 1243, in
    92436 matrix_indices_to_xyz_transform 
    92437 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92438 File
    92439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92440 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92441 r = self.subregion(step, subregion) 
    92442 File
    92443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92444 packages/chimerax/map/volume.py", line 1558, in subregion 
    92445 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92446 AttributeError: 'NoneType' object has no attribute 'size' 
    92447  
    92448 AttributeError: 'NoneType' object has no attribute 'size' 
    92449  
    92450 File
    92451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92452 packages/chimerax/map/volume.py", line 1558, in subregion 
    92453 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92454  
    92455 See log for complete Python traceback. 
    92456  
    92457 Traceback (most recent call last): 
    92458 File
    92459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92460 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92461 drew = self.draw_new_frame() 
    92462 File
    92463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92464 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92465 surface.update_clip_caps(view) 
    92466 File
    92467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92468 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92469 subdivision = settings.clipping_cap_subdivision) 
    92470 File
    92471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92472 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92473 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92474 File
    92475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92476 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92477 cm.set_geometry(varray, narray, tarray) 
    92478 File
    92479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92480 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92481 arv() 
    92482 File
    92483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92484 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92485 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92486 File
    92487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92488 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92489 s.vertex_colors = self.vertex_colors(report_stats) 
    92490 File
    92491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92492 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92493 values, outside = self.volume_values() 
    92494 File
    92495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92496 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92497 return self.offset_values(v, n, tf) 
    92498 File
    92499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92500 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92501 values, outside = self.vertex_values(v, xf) 
    92502 File
    92503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92504 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92505 out_of_bounds_list = True) 
    92506 File
    92507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92508 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92509 subregion, step) 
    92510 File
    92511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92512 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92513 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92514 File
    92515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92516 packages/chimerax/map/volume.py", line 1243, in
    92517 matrix_indices_to_xyz_transform 
    92518 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92519 File
    92520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92521 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92522 r = self.subregion(step, subregion) 
    92523 File
    92524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92525 packages/chimerax/map/volume.py", line 1558, in subregion 
    92526 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92527 AttributeError: 'NoneType' object has no attribute 'size' 
    92528  
    92529 AttributeError: 'NoneType' object has no attribute 'size' 
    92530  
    92531 File
    92532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92533 packages/chimerax/map/volume.py", line 1558, in subregion 
    92534 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92535  
    92536 See log for complete Python traceback. 
    92537  
    92538 Traceback (most recent call last): 
    92539 File
    92540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92541 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92542 drew = self.draw_new_frame() 
    92543 File
    92544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92545 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92546 surface.update_clip_caps(view) 
    92547 File
    92548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92549 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92550 subdivision = settings.clipping_cap_subdivision) 
    92551 File
    92552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92553 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92554 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92555 File
    92556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92557 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92558 cm.set_geometry(varray, narray, tarray) 
    92559 File
    92560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92561 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92562 arv() 
    92563 File
    92564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92565 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92566 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92567 File
    92568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92569 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92570 s.vertex_colors = self.vertex_colors(report_stats) 
    92571 File
    92572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92573 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92574 values, outside = self.volume_values() 
    92575 File
    92576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92577 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92578 return self.offset_values(v, n, tf) 
    92579 File
    92580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92581 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92582 values, outside = self.vertex_values(v, xf) 
    92583 File
    92584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92585 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92586 out_of_bounds_list = True) 
    92587 File
    92588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92589 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92590 subregion, step) 
    92591 File
    92592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92593 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92594 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92595 File
    92596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92597 packages/chimerax/map/volume.py", line 1243, in
    92598 matrix_indices_to_xyz_transform 
    92599 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92600 File
    92601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92602 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92603 r = self.subregion(step, subregion) 
    92604 File
    92605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92606 packages/chimerax/map/volume.py", line 1558, in subregion 
    92607 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92608 AttributeError: 'NoneType' object has no attribute 'size' 
    92609  
    92610 AttributeError: 'NoneType' object has no attribute 'size' 
    92611  
    92612 File
    92613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92614 packages/chimerax/map/volume.py", line 1558, in subregion 
    92615 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92616  
    92617 See log for complete Python traceback. 
    92618  
    92619 Traceback (most recent call last): 
    92620 File
    92621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92622 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92623 drew = self.draw_new_frame() 
    92624 File
    92625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92626 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92627 surface.update_clip_caps(view) 
    92628 File
    92629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92630 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92631 subdivision = settings.clipping_cap_subdivision) 
    92632 File
    92633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92634 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92635 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92636 File
    92637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92638 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92639 cm.set_geometry(varray, narray, tarray) 
    92640 File
    92641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92642 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92643 arv() 
    92644 File
    92645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92646 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92647 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92648 File
    92649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92650 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92651 s.vertex_colors = self.vertex_colors(report_stats) 
    92652 File
    92653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92654 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92655 values, outside = self.volume_values() 
    92656 File
    92657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92658 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92659 return self.offset_values(v, n, tf) 
    92660 File
    92661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92662 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92663 values, outside = self.vertex_values(v, xf) 
    92664 File
    92665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92666 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92667 out_of_bounds_list = True) 
    92668 File
    92669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92670 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92671 subregion, step) 
    92672 File
    92673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92674 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92675 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92676 File
    92677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92678 packages/chimerax/map/volume.py", line 1243, in
    92679 matrix_indices_to_xyz_transform 
    92680 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92681 File
    92682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92683 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92684 r = self.subregion(step, subregion) 
    92685 File
    92686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92687 packages/chimerax/map/volume.py", line 1558, in subregion 
    92688 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92689 AttributeError: 'NoneType' object has no attribute 'size' 
    92690  
    92691 AttributeError: 'NoneType' object has no attribute 'size' 
    92692  
    92693 File
    92694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92695 packages/chimerax/map/volume.py", line 1558, in subregion 
    92696 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92697  
    92698 See log for complete Python traceback. 
    92699  
    92700 Traceback (most recent call last): 
    92701 File
    92702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92703 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92704 drew = self.draw_new_frame() 
    92705 File
    92706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92707 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92708 surface.update_clip_caps(view) 
    92709 File
    92710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92711 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92712 subdivision = settings.clipping_cap_subdivision) 
    92713 File
    92714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92715 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92716 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92717 File
    92718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92719 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92720 cm.set_geometry(varray, narray, tarray) 
    92721 File
    92722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92723 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92724 arv() 
    92725 File
    92726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92727 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92728 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92729 File
    92730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92731 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92732 s.vertex_colors = self.vertex_colors(report_stats) 
    92733 File
    92734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92735 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92736 values, outside = self.volume_values() 
    92737 File
    92738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92739 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92740 return self.offset_values(v, n, tf) 
    92741 File
    92742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92743 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92744 values, outside = self.vertex_values(v, xf) 
    92745 File
    92746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92747 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92748 out_of_bounds_list = True) 
    92749 File
    92750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92751 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92752 subregion, step) 
    92753 File
    92754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92755 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92756 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92757 File
    92758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92759 packages/chimerax/map/volume.py", line 1243, in
    92760 matrix_indices_to_xyz_transform 
    92761 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92762 File
    92763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92764 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92765 r = self.subregion(step, subregion) 
    92766 File
    92767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92768 packages/chimerax/map/volume.py", line 1558, in subregion 
    92769 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92770 AttributeError: 'NoneType' object has no attribute 'size' 
    92771  
    92772 AttributeError: 'NoneType' object has no attribute 'size' 
    92773  
    92774 File
    92775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92776 packages/chimerax/map/volume.py", line 1558, in subregion 
    92777 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92778  
    92779 See log for complete Python traceback. 
    92780  
    92781 Traceback (most recent call last): 
    92782 File
    92783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92784 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92785 drew = self.draw_new_frame() 
    92786 File
    92787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92788 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92789 surface.update_clip_caps(view) 
    92790 File
    92791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92792 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92793 subdivision = settings.clipping_cap_subdivision) 
    92794 File
    92795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92796 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92797 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92798 File
    92799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92800 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92801 cm.set_geometry(varray, narray, tarray) 
    92802 File
    92803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92804 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92805 arv() 
    92806 File
    92807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92808 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92809 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92810 File
    92811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92812 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92813 s.vertex_colors = self.vertex_colors(report_stats) 
    92814 File
    92815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92816 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92817 values, outside = self.volume_values() 
    92818 File
    92819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92820 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92821 return self.offset_values(v, n, tf) 
    92822 File
    92823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92824 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92825 values, outside = self.vertex_values(v, xf) 
    92826 File
    92827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92828 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92829 out_of_bounds_list = True) 
    92830 File
    92831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92832 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92833 subregion, step) 
    92834 File
    92835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92836 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92837 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92838 File
    92839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92840 packages/chimerax/map/volume.py", line 1243, in
    92841 matrix_indices_to_xyz_transform 
    92842 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92843 File
    92844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92845 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92846 r = self.subregion(step, subregion) 
    92847 File
    92848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92849 packages/chimerax/map/volume.py", line 1558, in subregion 
    92850 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92851 AttributeError: 'NoneType' object has no attribute 'size' 
    92852  
    92853 AttributeError: 'NoneType' object has no attribute 'size' 
    92854  
    92855 File
    92856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92857 packages/chimerax/map/volume.py", line 1558, in subregion 
    92858 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92859  
    92860 See log for complete Python traceback. 
    92861  
    92862 Traceback (most recent call last): 
    92863 File
    92864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92865 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92866 drew = self.draw_new_frame() 
    92867 File
    92868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92869 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92870 surface.update_clip_caps(view) 
    92871 File
    92872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92873 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92874 subdivision = settings.clipping_cap_subdivision) 
    92875 File
    92876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92877 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92878 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92879 File
    92880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92881 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92882 cm.set_geometry(varray, narray, tarray) 
    92883 File
    92884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92885 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92886 arv() 
    92887 File
    92888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92889 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92890 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92891 File
    92892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92893 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92894 s.vertex_colors = self.vertex_colors(report_stats) 
    92895 File
    92896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92897 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92898 values, outside = self.volume_values() 
    92899 File
    92900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92901 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92902 return self.offset_values(v, n, tf) 
    92903 File
    92904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92905 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92906 values, outside = self.vertex_values(v, xf) 
    92907 File
    92908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92909 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92910 out_of_bounds_list = True) 
    92911 File
    92912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92913 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92914 subregion, step) 
    92915 File
    92916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92917 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92918 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    92919 File
    92920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92921 packages/chimerax/map/volume.py", line 1243, in
    92922 matrix_indices_to_xyz_transform 
    92923 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    92924 File
    92925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92926 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    92927 r = self.subregion(step, subregion) 
    92928 File
    92929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92930 packages/chimerax/map/volume.py", line 1558, in subregion 
    92931 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92932 AttributeError: 'NoneType' object has no attribute 'size' 
    92933  
    92934 AttributeError: 'NoneType' object has no attribute 'size' 
    92935  
    92936 File
    92937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92938 packages/chimerax/map/volume.py", line 1558, in subregion 
    92939 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    92940  
    92941 See log for complete Python traceback. 
    92942  
    92943 Traceback (most recent call last): 
    92944 File
    92945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92946 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    92947 drew = self.draw_new_frame() 
    92948 File
    92949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92950 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    92951 surface.update_clip_caps(view) 
    92952 File
    92953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92954 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    92955 subdivision = settings.clipping_cap_subdivision) 
    92956 File
    92957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92958 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    92959 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    92960 File
    92961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92962 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    92963 cm.set_geometry(varray, narray, tarray) 
    92964 File
    92965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92966 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    92967 arv() 
    92968 File
    92969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92970 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    92971 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    92972 File
    92973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92974 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    92975 s.vertex_colors = self.vertex_colors(report_stats) 
    92976 File
    92977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92978 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    92979 values, outside = self.volume_values() 
    92980 File
    92981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92982 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    92983 return self.offset_values(v, n, tf) 
    92984 File
    92985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92986 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    92987 values, outside = self.vertex_values(v, xf) 
    92988 File
    92989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92990 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    92991 out_of_bounds_list = True) 
    92992 File
    92993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92994 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    92995 subregion, step) 
    92996 File
    92997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    92998 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    92999 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93000 File
    93001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93002 packages/chimerax/map/volume.py", line 1243, in
    93003 matrix_indices_to_xyz_transform 
    93004 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93005 File
    93006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93007 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93008 r = self.subregion(step, subregion) 
    93009 File
    93010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93011 packages/chimerax/map/volume.py", line 1558, in subregion 
    93012 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93013 AttributeError: 'NoneType' object has no attribute 'size' 
    93014  
    93015 AttributeError: 'NoneType' object has no attribute 'size' 
    93016  
    93017 File
    93018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93019 packages/chimerax/map/volume.py", line 1558, in subregion 
    93020 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93021  
    93022 See log for complete Python traceback. 
    93023  
    93024 Traceback (most recent call last): 
    93025 File
    93026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93027 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93028 drew = self.draw_new_frame() 
    93029 File
    93030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93031 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93032 surface.update_clip_caps(view) 
    93033 File
    93034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93035 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93036 subdivision = settings.clipping_cap_subdivision) 
    93037 File
    93038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93039 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93040 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93041 File
    93042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93043 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93044 cm.set_geometry(varray, narray, tarray) 
    93045 File
    93046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93047 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93048 arv() 
    93049 File
    93050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93051 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93052 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93053 File
    93054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93055 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93056 s.vertex_colors = self.vertex_colors(report_stats) 
    93057 File
    93058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93059 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93060 values, outside = self.volume_values() 
    93061 File
    93062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93063 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93064 return self.offset_values(v, n, tf) 
    93065 File
    93066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93067 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93068 values, outside = self.vertex_values(v, xf) 
    93069 File
    93070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93071 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93072 out_of_bounds_list = True) 
    93073 File
    93074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93075 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93076 subregion, step) 
    93077 File
    93078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93079 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93080 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93081 File
    93082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93083 packages/chimerax/map/volume.py", line 1243, in
    93084 matrix_indices_to_xyz_transform 
    93085 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93086 File
    93087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93088 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93089 r = self.subregion(step, subregion) 
    93090 File
    93091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93092 packages/chimerax/map/volume.py", line 1558, in subregion 
    93093 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93094 AttributeError: 'NoneType' object has no attribute 'size' 
    93095  
    93096 AttributeError: 'NoneType' object has no attribute 'size' 
    93097  
    93098 File
    93099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93100 packages/chimerax/map/volume.py", line 1558, in subregion 
    93101 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93102  
    93103 See log for complete Python traceback. 
    93104  
    93105 Traceback (most recent call last): 
    93106 File
    93107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93108 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93109 drew = self.draw_new_frame() 
    93110 File
    93111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93112 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93113 surface.update_clip_caps(view) 
    93114 File
    93115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93116 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93117 subdivision = settings.clipping_cap_subdivision) 
    93118 File
    93119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93120 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93121 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93122 File
    93123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93124 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93125 cm.set_geometry(varray, narray, tarray) 
    93126 File
    93127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93128 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93129 arv() 
    93130 File
    93131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93132 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93133 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93134 File
    93135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93136 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93137 s.vertex_colors = self.vertex_colors(report_stats) 
    93138 File
    93139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93140 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93141 values, outside = self.volume_values() 
    93142 File
    93143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93144 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93145 return self.offset_values(v, n, tf) 
    93146 File
    93147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93148 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93149 values, outside = self.vertex_values(v, xf) 
    93150 File
    93151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93152 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93153 out_of_bounds_list = True) 
    93154 File
    93155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93156 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93157 subregion, step) 
    93158 File
    93159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93160 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93161 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93162 File
    93163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93164 packages/chimerax/map/volume.py", line 1243, in
    93165 matrix_indices_to_xyz_transform 
    93166 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93167 File
    93168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93169 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93170 r = self.subregion(step, subregion) 
    93171 File
    93172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93173 packages/chimerax/map/volume.py", line 1558, in subregion 
    93174 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93175 AttributeError: 'NoneType' object has no attribute 'size' 
    93176  
    93177 AttributeError: 'NoneType' object has no attribute 'size' 
    93178  
    93179 File
    93180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93181 packages/chimerax/map/volume.py", line 1558, in subregion 
    93182 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93183  
    93184 See log for complete Python traceback. 
    93185  
    93186 Traceback (most recent call last): 
    93187 File
    93188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93189 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93190 drew = self.draw_new_frame() 
    93191 File
    93192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93193 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93194 surface.update_clip_caps(view) 
    93195 File
    93196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93197 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93198 subdivision = settings.clipping_cap_subdivision) 
    93199 File
    93200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93201 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93202 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93203 File
    93204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93205 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93206 cm.set_geometry(varray, narray, tarray) 
    93207 File
    93208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93209 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93210 arv() 
    93211 File
    93212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93213 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93214 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93215 File
    93216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93217 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93218 s.vertex_colors = self.vertex_colors(report_stats) 
    93219 File
    93220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93221 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93222 values, outside = self.volume_values() 
    93223 File
    93224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93225 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93226 return self.offset_values(v, n, tf) 
    93227 File
    93228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93229 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93230 values, outside = self.vertex_values(v, xf) 
    93231 File
    93232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93233 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93234 out_of_bounds_list = True) 
    93235 File
    93236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93237 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93238 subregion, step) 
    93239 File
    93240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93241 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93242 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93243 File
    93244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93245 packages/chimerax/map/volume.py", line 1243, in
    93246 matrix_indices_to_xyz_transform 
    93247 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93248 File
    93249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93250 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93251 r = self.subregion(step, subregion) 
    93252 File
    93253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93254 packages/chimerax/map/volume.py", line 1558, in subregion 
    93255 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93256 AttributeError: 'NoneType' object has no attribute 'size' 
    93257  
    93258 AttributeError: 'NoneType' object has no attribute 'size' 
    93259  
    93260 File
    93261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93262 packages/chimerax/map/volume.py", line 1558, in subregion 
    93263 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93264  
    93265 See log for complete Python traceback. 
    93266  
    93267 Traceback (most recent call last): 
    93268 File
    93269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93270 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93271 drew = self.draw_new_frame() 
    93272 File
    93273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93274 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93275 surface.update_clip_caps(view) 
    93276 File
    93277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93278 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93279 subdivision = settings.clipping_cap_subdivision) 
    93280 File
    93281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93282 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93283 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93284 File
    93285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93286 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93287 cm.set_geometry(varray, narray, tarray) 
    93288 File
    93289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93290 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93291 arv() 
    93292 File
    93293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93294 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93295 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93296 File
    93297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93298 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93299 s.vertex_colors = self.vertex_colors(report_stats) 
    93300 File
    93301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93302 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93303 values, outside = self.volume_values() 
    93304 File
    93305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93306 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93307 return self.offset_values(v, n, tf) 
    93308 File
    93309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93310 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93311 values, outside = self.vertex_values(v, xf) 
    93312 File
    93313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93314 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93315 out_of_bounds_list = True) 
    93316 File
    93317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93318 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93319 subregion, step) 
    93320 File
    93321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93322 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93323 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93324 File
    93325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93326 packages/chimerax/map/volume.py", line 1243, in
    93327 matrix_indices_to_xyz_transform 
    93328 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93329 File
    93330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93331 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93332 r = self.subregion(step, subregion) 
    93333 File
    93334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93335 packages/chimerax/map/volume.py", line 1558, in subregion 
    93336 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93337 AttributeError: 'NoneType' object has no attribute 'size' 
    93338  
    93339 AttributeError: 'NoneType' object has no attribute 'size' 
    93340  
    93341 File
    93342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93343 packages/chimerax/map/volume.py", line 1558, in subregion 
    93344 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93345  
    93346 See log for complete Python traceback. 
    93347  
    93348 Traceback (most recent call last): 
    93349 File
    93350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93351 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93352 drew = self.draw_new_frame() 
    93353 File
    93354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93355 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93356 surface.update_clip_caps(view) 
    93357 File
    93358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93359 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93360 subdivision = settings.clipping_cap_subdivision) 
    93361 File
    93362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93363 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93364 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93365 File
    93366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93367 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93368 cm.set_geometry(varray, narray, tarray) 
    93369 File
    93370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93371 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93372 arv() 
    93373 File
    93374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93375 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93376 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93377 File
    93378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93379 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93380 s.vertex_colors = self.vertex_colors(report_stats) 
    93381 File
    93382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93383 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93384 values, outside = self.volume_values() 
    93385 File
    93386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93387 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93388 return self.offset_values(v, n, tf) 
    93389 File
    93390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93391 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93392 values, outside = self.vertex_values(v, xf) 
    93393 File
    93394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93395 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93396 out_of_bounds_list = True) 
    93397 File
    93398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93399 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93400 subregion, step) 
    93401 File
    93402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93403 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93404 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93405 File
    93406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93407 packages/chimerax/map/volume.py", line 1243, in
    93408 matrix_indices_to_xyz_transform 
    93409 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93410 File
    93411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93412 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93413 r = self.subregion(step, subregion) 
    93414 File
    93415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93416 packages/chimerax/map/volume.py", line 1558, in subregion 
    93417 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93418 AttributeError: 'NoneType' object has no attribute 'size' 
    93419  
    93420 AttributeError: 'NoneType' object has no attribute 'size' 
    93421  
    93422 File
    93423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93424 packages/chimerax/map/volume.py", line 1558, in subregion 
    93425 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93426  
    93427 See log for complete Python traceback. 
    93428  
    93429 Traceback (most recent call last): 
    93430 File
    93431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93432 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93433 drew = self.draw_new_frame() 
    93434 File
    93435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93436 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93437 surface.update_clip_caps(view) 
    93438 File
    93439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93440 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93441 subdivision = settings.clipping_cap_subdivision) 
    93442 File
    93443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93444 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93445 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93446 File
    93447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93448 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93449 cm.set_geometry(varray, narray, tarray) 
    93450 File
    93451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93452 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93453 arv() 
    93454 File
    93455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93456 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93457 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93458 File
    93459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93460 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93461 s.vertex_colors = self.vertex_colors(report_stats) 
    93462 File
    93463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93464 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93465 values, outside = self.volume_values() 
    93466 File
    93467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93468 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93469 return self.offset_values(v, n, tf) 
    93470 File
    93471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93472 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93473 values, outside = self.vertex_values(v, xf) 
    93474 File
    93475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93476 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93477 out_of_bounds_list = True) 
    93478 File
    93479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93480 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93481 subregion, step) 
    93482 File
    93483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93484 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93485 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93486 File
    93487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93488 packages/chimerax/map/volume.py", line 1243, in
    93489 matrix_indices_to_xyz_transform 
    93490 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93491 File
    93492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93493 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93494 r = self.subregion(step, subregion) 
    93495 File
    93496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93497 packages/chimerax/map/volume.py", line 1558, in subregion 
    93498 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93499 AttributeError: 'NoneType' object has no attribute 'size' 
    93500  
    93501 AttributeError: 'NoneType' object has no attribute 'size' 
    93502  
    93503 File
    93504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93505 packages/chimerax/map/volume.py", line 1558, in subregion 
    93506 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93507  
    93508 See log for complete Python traceback. 
    93509  
    93510 Traceback (most recent call last): 
    93511 File
    93512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93513 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93514 drew = self.draw_new_frame() 
    93515 File
    93516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93517 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93518 surface.update_clip_caps(view) 
    93519 File
    93520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93521 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93522 subdivision = settings.clipping_cap_subdivision) 
    93523 File
    93524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93525 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93526 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93527 File
    93528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93529 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93530 cm.set_geometry(varray, narray, tarray) 
    93531 File
    93532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93533 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93534 arv() 
    93535 File
    93536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93537 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93538 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93539 File
    93540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93541 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93542 s.vertex_colors = self.vertex_colors(report_stats) 
    93543 File
    93544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93545 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93546 values, outside = self.volume_values() 
    93547 File
    93548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93549 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93550 return self.offset_values(v, n, tf) 
    93551 File
    93552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93553 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93554 values, outside = self.vertex_values(v, xf) 
    93555 File
    93556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93557 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93558 out_of_bounds_list = True) 
    93559 File
    93560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93561 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93562 subregion, step) 
    93563 File
    93564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93565 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93566 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93567 File
    93568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93569 packages/chimerax/map/volume.py", line 1243, in
    93570 matrix_indices_to_xyz_transform 
    93571 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93572 File
    93573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93574 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93575 r = self.subregion(step, subregion) 
    93576 File
    93577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93578 packages/chimerax/map/volume.py", line 1558, in subregion 
    93579 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93580 AttributeError: 'NoneType' object has no attribute 'size' 
    93581  
    93582 AttributeError: 'NoneType' object has no attribute 'size' 
    93583  
    93584 File
    93585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93586 packages/chimerax/map/volume.py", line 1558, in subregion 
    93587 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93588  
    93589 See log for complete Python traceback. 
    93590  
    93591 Traceback (most recent call last): 
    93592 File
    93593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93594 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93595 drew = self.draw_new_frame() 
    93596 File
    93597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93598 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93599 surface.update_clip_caps(view) 
    93600 File
    93601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93602 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93603 subdivision = settings.clipping_cap_subdivision) 
    93604 File
    93605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93606 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93607 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93608 File
    93609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93610 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93611 cm.set_geometry(varray, narray, tarray) 
    93612 File
    93613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93614 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93615 arv() 
    93616 File
    93617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93618 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93619 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93620 File
    93621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93622 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93623 s.vertex_colors = self.vertex_colors(report_stats) 
    93624 File
    93625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93626 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93627 values, outside = self.volume_values() 
    93628 File
    93629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93630 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93631 return self.offset_values(v, n, tf) 
    93632 File
    93633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93634 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93635 values, outside = self.vertex_values(v, xf) 
    93636 File
    93637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93638 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93639 out_of_bounds_list = True) 
    93640 File
    93641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93642 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93643 subregion, step) 
    93644 File
    93645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93646 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93647 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93648 File
    93649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93650 packages/chimerax/map/volume.py", line 1243, in
    93651 matrix_indices_to_xyz_transform 
    93652 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93653 File
    93654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93655 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93656 r = self.subregion(step, subregion) 
    93657 File
    93658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93659 packages/chimerax/map/volume.py", line 1558, in subregion 
    93660 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93661 AttributeError: 'NoneType' object has no attribute 'size' 
    93662  
    93663 AttributeError: 'NoneType' object has no attribute 'size' 
    93664  
    93665 File
    93666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93667 packages/chimerax/map/volume.py", line 1558, in subregion 
    93668 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93669  
    93670 See log for complete Python traceback. 
    93671  
    93672 Traceback (most recent call last): 
    93673 File
    93674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93675 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93676 drew = self.draw_new_frame() 
    93677 File
    93678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93679 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93680 surface.update_clip_caps(view) 
    93681 File
    93682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93683 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93684 subdivision = settings.clipping_cap_subdivision) 
    93685 File
    93686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93687 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93688 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93689 File
    93690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93691 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93692 cm.set_geometry(varray, narray, tarray) 
    93693 File
    93694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93695 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93696 arv() 
    93697 File
    93698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93699 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93700 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93701 File
    93702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93703 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93704 s.vertex_colors = self.vertex_colors(report_stats) 
    93705 File
    93706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93707 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93708 values, outside = self.volume_values() 
    93709 File
    93710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93711 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93712 return self.offset_values(v, n, tf) 
    93713 File
    93714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93715 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93716 values, outside = self.vertex_values(v, xf) 
    93717 File
    93718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93719 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93720 out_of_bounds_list = True) 
    93721 File
    93722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93723 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93724 subregion, step) 
    93725 File
    93726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93727 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93728 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93729 File
    93730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93731 packages/chimerax/map/volume.py", line 1243, in
    93732 matrix_indices_to_xyz_transform 
    93733 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93734 File
    93735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93736 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93737 r = self.subregion(step, subregion) 
    93738 File
    93739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93740 packages/chimerax/map/volume.py", line 1558, in subregion 
    93741 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93742 AttributeError: 'NoneType' object has no attribute 'size' 
    93743  
    93744 AttributeError: 'NoneType' object has no attribute 'size' 
    93745  
    93746 File
    93747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93748 packages/chimerax/map/volume.py", line 1558, in subregion 
    93749 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93750  
    93751 See log for complete Python traceback. 
    93752  
    93753 Traceback (most recent call last): 
    93754 File
    93755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93756 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93757 drew = self.draw_new_frame() 
    93758 File
    93759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93760 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93761 surface.update_clip_caps(view) 
    93762 File
    93763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93764 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93765 subdivision = settings.clipping_cap_subdivision) 
    93766 File
    93767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93768 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93769 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93770 File
    93771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93772 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93773 cm.set_geometry(varray, narray, tarray) 
    93774 File
    93775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93776 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93777 arv() 
    93778 File
    93779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93780 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93781 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93782 File
    93783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93784 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93785 s.vertex_colors = self.vertex_colors(report_stats) 
    93786 File
    93787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93788 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93789 values, outside = self.volume_values() 
    93790 File
    93791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93792 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93793 return self.offset_values(v, n, tf) 
    93794 File
    93795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93796 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93797 values, outside = self.vertex_values(v, xf) 
    93798 File
    93799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93800 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93801 out_of_bounds_list = True) 
    93802 File
    93803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93804 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93805 subregion, step) 
    93806 File
    93807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93808 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93809 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93810 File
    93811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93812 packages/chimerax/map/volume.py", line 1243, in
    93813 matrix_indices_to_xyz_transform 
    93814 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93815 File
    93816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93817 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93818 r = self.subregion(step, subregion) 
    93819 File
    93820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93821 packages/chimerax/map/volume.py", line 1558, in subregion 
    93822 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93823 AttributeError: 'NoneType' object has no attribute 'size' 
    93824  
    93825 AttributeError: 'NoneType' object has no attribute 'size' 
    93826  
    93827 File
    93828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93829 packages/chimerax/map/volume.py", line 1558, in subregion 
    93830 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93831  
    93832 See log for complete Python traceback. 
    93833  
    93834 Traceback (most recent call last): 
    93835 File
    93836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93837 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93838 drew = self.draw_new_frame() 
    93839 File
    93840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93841 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93842 surface.update_clip_caps(view) 
    93843 File
    93844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93845 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93846 subdivision = settings.clipping_cap_subdivision) 
    93847 File
    93848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93849 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93850 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93851 File
    93852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93853 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93854 cm.set_geometry(varray, narray, tarray) 
    93855 File
    93856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93857 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93858 arv() 
    93859 File
    93860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93861 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93862 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93863 File
    93864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93865 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93866 s.vertex_colors = self.vertex_colors(report_stats) 
    93867 File
    93868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93869 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93870 values, outside = self.volume_values() 
    93871 File
    93872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93873 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93874 return self.offset_values(v, n, tf) 
    93875 File
    93876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93877 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93878 values, outside = self.vertex_values(v, xf) 
    93879 File
    93880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93881 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93882 out_of_bounds_list = True) 
    93883 File
    93884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93885 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93886 subregion, step) 
    93887 File
    93888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93889 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93890 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93891 File
    93892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93893 packages/chimerax/map/volume.py", line 1243, in
    93894 matrix_indices_to_xyz_transform 
    93895 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93896 File
    93897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93898 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93899 r = self.subregion(step, subregion) 
    93900 File
    93901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93902 packages/chimerax/map/volume.py", line 1558, in subregion 
    93903 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93904 AttributeError: 'NoneType' object has no attribute 'size' 
    93905  
    93906 AttributeError: 'NoneType' object has no attribute 'size' 
    93907  
    93908 File
    93909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93910 packages/chimerax/map/volume.py", line 1558, in subregion 
    93911 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93912  
    93913 See log for complete Python traceback. 
    93914  
    93915 Traceback (most recent call last): 
    93916 File
    93917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93918 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    93919 drew = self.draw_new_frame() 
    93920 File
    93921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93922 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    93923 surface.update_clip_caps(view) 
    93924 File
    93925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93926 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    93927 subdivision = settings.clipping_cap_subdivision) 
    93928 File
    93929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93930 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    93931 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    93932 File
    93933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93934 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    93935 cm.set_geometry(varray, narray, tarray) 
    93936 File
    93937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93938 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    93939 arv() 
    93940 File
    93941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93942 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    93943 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    93944 File
    93945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93946 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    93947 s.vertex_colors = self.vertex_colors(report_stats) 
    93948 File
    93949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93950 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    93951 values, outside = self.volume_values() 
    93952 File
    93953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93954 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    93955 return self.offset_values(v, n, tf) 
    93956 File
    93957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93958 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    93959 values, outside = self.vertex_values(v, xf) 
    93960 File
    93961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93962 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    93963 out_of_bounds_list = True) 
    93964 File
    93965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93966 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    93967 subregion, step) 
    93968 File
    93969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93970 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    93971 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    93972 File
    93973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93974 packages/chimerax/map/volume.py", line 1243, in
    93975 matrix_indices_to_xyz_transform 
    93976 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    93977 File
    93978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93979 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    93980 r = self.subregion(step, subregion) 
    93981 File
    93982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93983 packages/chimerax/map/volume.py", line 1558, in subregion 
    93984 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93985 AttributeError: 'NoneType' object has no attribute 'size' 
    93986  
    93987 AttributeError: 'NoneType' object has no attribute 'size' 
    93988  
    93989 File
    93990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93991 packages/chimerax/map/volume.py", line 1558, in subregion 
    93992 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    93993  
    93994 See log for complete Python traceback. 
    93995  
    93996 Traceback (most recent call last): 
    93997 File
    93998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    93999 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94000 drew = self.draw_new_frame() 
    94001 File
    94002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94003 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94004 surface.update_clip_caps(view) 
    94005 File
    94006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94007 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94008 subdivision = settings.clipping_cap_subdivision) 
    94009 File
    94010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94011 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94012 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94013 File
    94014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94015 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94016 cm.set_geometry(varray, narray, tarray) 
    94017 File
    94018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94019 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94020 arv() 
    94021 File
    94022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94023 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94024 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94025 File
    94026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94027 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94028 s.vertex_colors = self.vertex_colors(report_stats) 
    94029 File
    94030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94031 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94032 values, outside = self.volume_values() 
    94033 File
    94034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94035 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94036 return self.offset_values(v, n, tf) 
    94037 File
    94038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94039 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94040 values, outside = self.vertex_values(v, xf) 
    94041 File
    94042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94043 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94044 out_of_bounds_list = True) 
    94045 File
    94046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94047 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94048 subregion, step) 
    94049 File
    94050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94051 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94052 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94053 File
    94054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94055 packages/chimerax/map/volume.py", line 1243, in
    94056 matrix_indices_to_xyz_transform 
    94057 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94058 File
    94059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94060 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94061 r = self.subregion(step, subregion) 
    94062 File
    94063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94064 packages/chimerax/map/volume.py", line 1558, in subregion 
    94065 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94066 AttributeError: 'NoneType' object has no attribute 'size' 
    94067  
    94068 AttributeError: 'NoneType' object has no attribute 'size' 
    94069  
    94070 File
    94071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94072 packages/chimerax/map/volume.py", line 1558, in subregion 
    94073 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94074  
    94075 See log for complete Python traceback. 
    94076  
    94077 Traceback (most recent call last): 
    94078 File
    94079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94080 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94081 drew = self.draw_new_frame() 
    94082 File
    94083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94084 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94085 surface.update_clip_caps(view) 
    94086 File
    94087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94088 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94089 subdivision = settings.clipping_cap_subdivision) 
    94090 File
    94091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94092 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94093 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94094 File
    94095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94096 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94097 cm.set_geometry(varray, narray, tarray) 
    94098 File
    94099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94100 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94101 arv() 
    94102 File
    94103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94104 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94105 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94106 File
    94107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94108 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94109 s.vertex_colors = self.vertex_colors(report_stats) 
    94110 File
    94111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94112 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94113 values, outside = self.volume_values() 
    94114 File
    94115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94116 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94117 return self.offset_values(v, n, tf) 
    94118 File
    94119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94120 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94121 values, outside = self.vertex_values(v, xf) 
    94122 File
    94123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94124 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94125 out_of_bounds_list = True) 
    94126 File
    94127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94128 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94129 subregion, step) 
    94130 File
    94131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94132 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94133 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94134 File
    94135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94136 packages/chimerax/map/volume.py", line 1243, in
    94137 matrix_indices_to_xyz_transform 
    94138 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94139 File
    94140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94141 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94142 r = self.subregion(step, subregion) 
    94143 File
    94144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94145 packages/chimerax/map/volume.py", line 1558, in subregion 
    94146 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94147 AttributeError: 'NoneType' object has no attribute 'size' 
    94148  
    94149 AttributeError: 'NoneType' object has no attribute 'size' 
    94150  
    94151 File
    94152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94153 packages/chimerax/map/volume.py", line 1558, in subregion 
    94154 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94155  
    94156 See log for complete Python traceback. 
    94157  
    94158 Traceback (most recent call last): 
    94159 File
    94160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94161 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94162 drew = self.draw_new_frame() 
    94163 File
    94164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94165 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94166 surface.update_clip_caps(view) 
    94167 File
    94168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94169 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94170 subdivision = settings.clipping_cap_subdivision) 
    94171 File
    94172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94173 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94174 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94175 File
    94176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94177 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94178 cm.set_geometry(varray, narray, tarray) 
    94179 File
    94180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94181 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94182 arv() 
    94183 File
    94184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94185 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94186 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94187 File
    94188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94189 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94190 s.vertex_colors = self.vertex_colors(report_stats) 
    94191 File
    94192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94193 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94194 values, outside = self.volume_values() 
    94195 File
    94196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94197 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94198 return self.offset_values(v, n, tf) 
    94199 File
    94200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94201 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94202 values, outside = self.vertex_values(v, xf) 
    94203 File
    94204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94205 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94206 out_of_bounds_list = True) 
    94207 File
    94208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94209 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94210 subregion, step) 
    94211 File
    94212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94213 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94214 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94215 File
    94216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94217 packages/chimerax/map/volume.py", line 1243, in
    94218 matrix_indices_to_xyz_transform 
    94219 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94220 File
    94221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94222 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94223 r = self.subregion(step, subregion) 
    94224 File
    94225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94226 packages/chimerax/map/volume.py", line 1558, in subregion 
    94227 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94228 AttributeError: 'NoneType' object has no attribute 'size' 
    94229  
    94230 AttributeError: 'NoneType' object has no attribute 'size' 
    94231  
    94232 File
    94233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94234 packages/chimerax/map/volume.py", line 1558, in subregion 
    94235 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94236  
    94237 See log for complete Python traceback. 
    94238  
    94239 Traceback (most recent call last): 
    94240 File
    94241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94242 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94243 drew = self.draw_new_frame() 
    94244 File
    94245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94246 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94247 surface.update_clip_caps(view) 
    94248 File
    94249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94250 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94251 subdivision = settings.clipping_cap_subdivision) 
    94252 File
    94253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94254 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94255 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94256 File
    94257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94258 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94259 cm.set_geometry(varray, narray, tarray) 
    94260 File
    94261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94262 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94263 arv() 
    94264 File
    94265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94266 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94267 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94268 File
    94269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94270 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94271 s.vertex_colors = self.vertex_colors(report_stats) 
    94272 File
    94273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94274 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94275 values, outside = self.volume_values() 
    94276 File
    94277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94278 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94279 return self.offset_values(v, n, tf) 
    94280 File
    94281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94282 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94283 values, outside = self.vertex_values(v, xf) 
    94284 File
    94285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94286 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94287 out_of_bounds_list = True) 
    94288 File
    94289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94290 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94291 subregion, step) 
    94292 File
    94293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94294 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94295 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94296 File
    94297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94298 packages/chimerax/map/volume.py", line 1243, in
    94299 matrix_indices_to_xyz_transform 
    94300 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94301 File
    94302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94303 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94304 r = self.subregion(step, subregion) 
    94305 File
    94306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94307 packages/chimerax/map/volume.py", line 1558, in subregion 
    94308 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94309 AttributeError: 'NoneType' object has no attribute 'size' 
    94310  
    94311 AttributeError: 'NoneType' object has no attribute 'size' 
    94312  
    94313 File
    94314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94315 packages/chimerax/map/volume.py", line 1558, in subregion 
    94316 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94317  
    94318 See log for complete Python traceback. 
    94319  
    94320 Traceback (most recent call last): 
    94321 File
    94322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94323 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94324 drew = self.draw_new_frame() 
    94325 File
    94326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94327 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94328 surface.update_clip_caps(view) 
    94329 File
    94330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94331 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94332 subdivision = settings.clipping_cap_subdivision) 
    94333 File
    94334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94335 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94336 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94337 File
    94338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94339 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94340 cm.set_geometry(varray, narray, tarray) 
    94341 File
    94342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94343 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94344 arv() 
    94345 File
    94346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94347 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94348 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94349 File
    94350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94351 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94352 s.vertex_colors = self.vertex_colors(report_stats) 
    94353 File
    94354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94355 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94356 values, outside = self.volume_values() 
    94357 File
    94358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94359 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94360 return self.offset_values(v, n, tf) 
    94361 File
    94362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94363 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94364 values, outside = self.vertex_values(v, xf) 
    94365 File
    94366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94367 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94368 out_of_bounds_list = True) 
    94369 File
    94370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94371 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94372 subregion, step) 
    94373 File
    94374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94375 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94376 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94377 File
    94378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94379 packages/chimerax/map/volume.py", line 1243, in
    94380 matrix_indices_to_xyz_transform 
    94381 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94382 File
    94383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94384 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94385 r = self.subregion(step, subregion) 
    94386 File
    94387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94388 packages/chimerax/map/volume.py", line 1558, in subregion 
    94389 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94390 AttributeError: 'NoneType' object has no attribute 'size' 
    94391  
    94392 AttributeError: 'NoneType' object has no attribute 'size' 
    94393  
    94394 File
    94395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94396 packages/chimerax/map/volume.py", line 1558, in subregion 
    94397 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94398  
    94399 See log for complete Python traceback. 
    94400  
    94401 Traceback (most recent call last): 
    94402 File
    94403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94404 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94405 drew = self.draw_new_frame() 
    94406 File
    94407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94408 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94409 surface.update_clip_caps(view) 
    94410 File
    94411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94412 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94413 subdivision = settings.clipping_cap_subdivision) 
    94414 File
    94415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94416 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94417 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94418 File
    94419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94420 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94421 cm.set_geometry(varray, narray, tarray) 
    94422 File
    94423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94424 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94425 arv() 
    94426 File
    94427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94428 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94429 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94430 File
    94431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94432 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94433 s.vertex_colors = self.vertex_colors(report_stats) 
    94434 File
    94435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94436 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94437 values, outside = self.volume_values() 
    94438 File
    94439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94440 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94441 return self.offset_values(v, n, tf) 
    94442 File
    94443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94444 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94445 values, outside = self.vertex_values(v, xf) 
    94446 File
    94447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94448 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94449 out_of_bounds_list = True) 
    94450 File
    94451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94452 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94453 subregion, step) 
    94454 File
    94455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94456 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94457 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94458 File
    94459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94460 packages/chimerax/map/volume.py", line 1243, in
    94461 matrix_indices_to_xyz_transform 
    94462 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94463 File
    94464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94465 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94466 r = self.subregion(step, subregion) 
    94467 File
    94468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94469 packages/chimerax/map/volume.py", line 1558, in subregion 
    94470 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94471 AttributeError: 'NoneType' object has no attribute 'size' 
    94472  
    94473 AttributeError: 'NoneType' object has no attribute 'size' 
    94474  
    94475 File
    94476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94477 packages/chimerax/map/volume.py", line 1558, in subregion 
    94478 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94479  
    94480 See log for complete Python traceback. 
    94481  
    94482 Traceback (most recent call last): 
    94483 File
    94484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94485 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94486 drew = self.draw_new_frame() 
    94487 File
    94488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94489 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94490 surface.update_clip_caps(view) 
    94491 File
    94492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94493 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94494 subdivision = settings.clipping_cap_subdivision) 
    94495 File
    94496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94497 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94498 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94499 File
    94500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94501 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94502 cm.set_geometry(varray, narray, tarray) 
    94503 File
    94504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94505 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94506 arv() 
    94507 File
    94508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94509 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94510 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94511 File
    94512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94513 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94514 s.vertex_colors = self.vertex_colors(report_stats) 
    94515 File
    94516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94517 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94518 values, outside = self.volume_values() 
    94519 File
    94520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94521 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94522 return self.offset_values(v, n, tf) 
    94523 File
    94524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94525 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94526 values, outside = self.vertex_values(v, xf) 
    94527 File
    94528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94529 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94530 out_of_bounds_list = True) 
    94531 File
    94532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94533 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94534 subregion, step) 
    94535 File
    94536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94537 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94538 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94539 File
    94540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94541 packages/chimerax/map/volume.py", line 1243, in
    94542 matrix_indices_to_xyz_transform 
    94543 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94544 File
    94545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94546 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94547 r = self.subregion(step, subregion) 
    94548 File
    94549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94550 packages/chimerax/map/volume.py", line 1558, in subregion 
    94551 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94552 AttributeError: 'NoneType' object has no attribute 'size' 
    94553  
    94554 AttributeError: 'NoneType' object has no attribute 'size' 
    94555  
    94556 File
    94557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94558 packages/chimerax/map/volume.py", line 1558, in subregion 
    94559 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94560  
    94561 See log for complete Python traceback. 
    94562  
    94563 Traceback (most recent call last): 
    94564 File
    94565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94566 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94567 drew = self.draw_new_frame() 
    94568 File
    94569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94570 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94571 surface.update_clip_caps(view) 
    94572 File
    94573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94574 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94575 subdivision = settings.clipping_cap_subdivision) 
    94576 File
    94577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94578 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94579 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94580 File
    94581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94582 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94583 cm.set_geometry(varray, narray, tarray) 
    94584 File
    94585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94586 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94587 arv() 
    94588 File
    94589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94590 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94591 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94592 File
    94593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94594 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94595 s.vertex_colors = self.vertex_colors(report_stats) 
    94596 File
    94597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94598 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94599 values, outside = self.volume_values() 
    94600 File
    94601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94602 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94603 return self.offset_values(v, n, tf) 
    94604 File
    94605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94606 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94607 values, outside = self.vertex_values(v, xf) 
    94608 File
    94609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94610 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94611 out_of_bounds_list = True) 
    94612 File
    94613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94614 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94615 subregion, step) 
    94616 File
    94617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94618 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94619 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94620 File
    94621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94622 packages/chimerax/map/volume.py", line 1243, in
    94623 matrix_indices_to_xyz_transform 
    94624 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94625 File
    94626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94627 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94628 r = self.subregion(step, subregion) 
    94629 File
    94630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94631 packages/chimerax/map/volume.py", line 1558, in subregion 
    94632 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94633 AttributeError: 'NoneType' object has no attribute 'size' 
    94634  
    94635 AttributeError: 'NoneType' object has no attribute 'size' 
    94636  
    94637 File
    94638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94639 packages/chimerax/map/volume.py", line 1558, in subregion 
    94640 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94641  
    94642 See log for complete Python traceback. 
    94643  
    94644 Traceback (most recent call last): 
    94645 File
    94646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94647 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94648 drew = self.draw_new_frame() 
    94649 File
    94650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94651 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94652 surface.update_clip_caps(view) 
    94653 File
    94654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94655 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94656 subdivision = settings.clipping_cap_subdivision) 
    94657 File
    94658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94659 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94660 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94661 File
    94662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94663 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94664 cm.set_geometry(varray, narray, tarray) 
    94665 File
    94666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94667 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94668 arv() 
    94669 File
    94670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94671 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94672 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94673 File
    94674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94675 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94676 s.vertex_colors = self.vertex_colors(report_stats) 
    94677 File
    94678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94679 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94680 values, outside = self.volume_values() 
    94681 File
    94682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94683 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94684 return self.offset_values(v, n, tf) 
    94685 File
    94686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94687 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94688 values, outside = self.vertex_values(v, xf) 
    94689 File
    94690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94691 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94692 out_of_bounds_list = True) 
    94693 File
    94694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94695 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94696 subregion, step) 
    94697 File
    94698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94699 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94700 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94701 File
    94702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94703 packages/chimerax/map/volume.py", line 1243, in
    94704 matrix_indices_to_xyz_transform 
    94705 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94706 File
    94707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94708 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94709 r = self.subregion(step, subregion) 
    94710 File
    94711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94712 packages/chimerax/map/volume.py", line 1558, in subregion 
    94713 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94714 AttributeError: 'NoneType' object has no attribute 'size' 
    94715  
    94716 AttributeError: 'NoneType' object has no attribute 'size' 
    94717  
    94718 File
    94719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94720 packages/chimerax/map/volume.py", line 1558, in subregion 
    94721 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94722  
    94723 See log for complete Python traceback. 
    94724  
    94725 Traceback (most recent call last): 
    94726 File
    94727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94728 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94729 drew = self.draw_new_frame() 
    94730 File
    94731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94732 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94733 surface.update_clip_caps(view) 
    94734 File
    94735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94736 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94737 subdivision = settings.clipping_cap_subdivision) 
    94738 File
    94739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94740 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94741 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94742 File
    94743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94744 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94745 cm.set_geometry(varray, narray, tarray) 
    94746 File
    94747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94748 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94749 arv() 
    94750 File
    94751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94752 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94753 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94754 File
    94755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94756 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94757 s.vertex_colors = self.vertex_colors(report_stats) 
    94758 File
    94759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94760 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94761 values, outside = self.volume_values() 
    94762 File
    94763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94764 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94765 return self.offset_values(v, n, tf) 
    94766 File
    94767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94768 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94769 values, outside = self.vertex_values(v, xf) 
    94770 File
    94771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94772 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94773 out_of_bounds_list = True) 
    94774 File
    94775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94776 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94777 subregion, step) 
    94778 File
    94779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94780 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94781 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94782 File
    94783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94784 packages/chimerax/map/volume.py", line 1243, in
    94785 matrix_indices_to_xyz_transform 
    94786 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94787 File
    94788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94789 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94790 r = self.subregion(step, subregion) 
    94791 File
    94792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94793 packages/chimerax/map/volume.py", line 1558, in subregion 
    94794 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94795 AttributeError: 'NoneType' object has no attribute 'size' 
    94796  
    94797 AttributeError: 'NoneType' object has no attribute 'size' 
    94798  
    94799 File
    94800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94801 packages/chimerax/map/volume.py", line 1558, in subregion 
    94802 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94803  
    94804 See log for complete Python traceback. 
    94805  
    94806 Traceback (most recent call last): 
    94807 File
    94808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94809 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94810 drew = self.draw_new_frame() 
    94811 File
    94812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94813 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94814 surface.update_clip_caps(view) 
    94815 File
    94816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94817 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94818 subdivision = settings.clipping_cap_subdivision) 
    94819 File
    94820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94821 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94822 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94823 File
    94824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94825 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94826 cm.set_geometry(varray, narray, tarray) 
    94827 File
    94828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94829 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94830 arv() 
    94831 File
    94832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94833 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94834 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94835 File
    94836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94837 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94838 s.vertex_colors = self.vertex_colors(report_stats) 
    94839 File
    94840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94841 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94842 values, outside = self.volume_values() 
    94843 File
    94844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94845 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94846 return self.offset_values(v, n, tf) 
    94847 File
    94848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94849 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94850 values, outside = self.vertex_values(v, xf) 
    94851 File
    94852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94853 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94854 out_of_bounds_list = True) 
    94855 File
    94856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94857 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94858 subregion, step) 
    94859 File
    94860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94861 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94862 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94863 File
    94864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94865 packages/chimerax/map/volume.py", line 1243, in
    94866 matrix_indices_to_xyz_transform 
    94867 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94868 File
    94869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94870 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94871 r = self.subregion(step, subregion) 
    94872 File
    94873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94874 packages/chimerax/map/volume.py", line 1558, in subregion 
    94875 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94876 AttributeError: 'NoneType' object has no attribute 'size' 
    94877  
    94878 AttributeError: 'NoneType' object has no attribute 'size' 
    94879  
    94880 File
    94881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94882 packages/chimerax/map/volume.py", line 1558, in subregion 
    94883 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94884  
    94885 See log for complete Python traceback. 
    94886  
    94887 Traceback (most recent call last): 
    94888 File
    94889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94890 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94891 drew = self.draw_new_frame() 
    94892 File
    94893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94894 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94895 surface.update_clip_caps(view) 
    94896 File
    94897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94898 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94899 subdivision = settings.clipping_cap_subdivision) 
    94900 File
    94901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94902 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94903 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94904 File
    94905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94906 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94907 cm.set_geometry(varray, narray, tarray) 
    94908 File
    94909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94910 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94911 arv() 
    94912 File
    94913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94914 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94915 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94916 File
    94917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94918 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    94919 s.vertex_colors = self.vertex_colors(report_stats) 
    94920 File
    94921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94922 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    94923 values, outside = self.volume_values() 
    94924 File
    94925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94926 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    94927 return self.offset_values(v, n, tf) 
    94928 File
    94929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94930 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    94931 values, outside = self.vertex_values(v, xf) 
    94932 File
    94933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94934 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    94935 out_of_bounds_list = True) 
    94936 File
    94937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94938 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    94939 subregion, step) 
    94940 File
    94941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94942 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    94943 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    94944 File
    94945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94946 packages/chimerax/map/volume.py", line 1243, in
    94947 matrix_indices_to_xyz_transform 
    94948 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    94949 File
    94950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94951 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    94952 r = self.subregion(step, subregion) 
    94953 File
    94954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94955 packages/chimerax/map/volume.py", line 1558, in subregion 
    94956 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94957 AttributeError: 'NoneType' object has no attribute 'size' 
    94958  
    94959 AttributeError: 'NoneType' object has no attribute 'size' 
    94960  
    94961 File
    94962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94963 packages/chimerax/map/volume.py", line 1558, in subregion 
    94964 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    94965  
    94966 See log for complete Python traceback. 
    94967  
    94968 Traceback (most recent call last): 
    94969 File
    94970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94971 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    94972 drew = self.draw_new_frame() 
    94973 File
    94974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94975 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    94976 surface.update_clip_caps(view) 
    94977 File
    94978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94979 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    94980 subdivision = settings.clipping_cap_subdivision) 
    94981 File
    94982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94983 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    94984 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    94985 File
    94986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94987 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    94988 cm.set_geometry(varray, narray, tarray) 
    94989 File
    94990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94991 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    94992 arv() 
    94993 File
    94994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94995 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    94996 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    94997 File
    94998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    94999 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95000 s.vertex_colors = self.vertex_colors(report_stats) 
    95001 File
    95002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95003 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95004 values, outside = self.volume_values() 
    95005 File
    95006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95007 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95008 return self.offset_values(v, n, tf) 
    95009 File
    95010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95011 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95012 values, outside = self.vertex_values(v, xf) 
    95013 File
    95014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95015 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95016 out_of_bounds_list = True) 
    95017 File
    95018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95019 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95020 subregion, step) 
    95021 File
    95022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95023 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95024 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95025 File
    95026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95027 packages/chimerax/map/volume.py", line 1243, in
    95028 matrix_indices_to_xyz_transform 
    95029 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95030 File
    95031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95032 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95033 r = self.subregion(step, subregion) 
    95034 File
    95035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95036 packages/chimerax/map/volume.py", line 1558, in subregion 
    95037 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95038 AttributeError: 'NoneType' object has no attribute 'size' 
    95039  
    95040 AttributeError: 'NoneType' object has no attribute 'size' 
    95041  
    95042 File
    95043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95044 packages/chimerax/map/volume.py", line 1558, in subregion 
    95045 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95046  
    95047 See log for complete Python traceback. 
    95048  
    95049 Traceback (most recent call last): 
    95050 File
    95051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95052 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95053 drew = self.draw_new_frame() 
    95054 File
    95055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95056 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95057 surface.update_clip_caps(view) 
    95058 File
    95059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95060 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95061 subdivision = settings.clipping_cap_subdivision) 
    95062 File
    95063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95064 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95065 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95066 File
    95067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95068 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95069 cm.set_geometry(varray, narray, tarray) 
    95070 File
    95071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95072 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95073 arv() 
    95074 File
    95075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95076 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95077 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95078 File
    95079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95080 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95081 s.vertex_colors = self.vertex_colors(report_stats) 
    95082 File
    95083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95084 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95085 values, outside = self.volume_values() 
    95086 File
    95087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95088 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95089 return self.offset_values(v, n, tf) 
    95090 File
    95091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95092 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95093 values, outside = self.vertex_values(v, xf) 
    95094 File
    95095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95096 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95097 out_of_bounds_list = True) 
    95098 File
    95099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95100 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95101 subregion, step) 
    95102 File
    95103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95104 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95105 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95106 File
    95107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95108 packages/chimerax/map/volume.py", line 1243, in
    95109 matrix_indices_to_xyz_transform 
    95110 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95111 File
    95112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95113 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95114 r = self.subregion(step, subregion) 
    95115 File
    95116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95117 packages/chimerax/map/volume.py", line 1558, in subregion 
    95118 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95119 AttributeError: 'NoneType' object has no attribute 'size' 
    95120  
    95121 AttributeError: 'NoneType' object has no attribute 'size' 
    95122  
    95123 File
    95124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95125 packages/chimerax/map/volume.py", line 1558, in subregion 
    95126 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95127  
    95128 See log for complete Python traceback. 
    95129  
    95130 Traceback (most recent call last): 
    95131 File
    95132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95133 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95134 drew = self.draw_new_frame() 
    95135 File
    95136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95137 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95138 surface.update_clip_caps(view) 
    95139 File
    95140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95141 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95142 subdivision = settings.clipping_cap_subdivision) 
    95143 File
    95144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95145 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95146 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95147 File
    95148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95149 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95150 cm.set_geometry(varray, narray, tarray) 
    95151 File
    95152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95153 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95154 arv() 
    95155 File
    95156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95157 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95158 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95159 File
    95160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95161 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95162 s.vertex_colors = self.vertex_colors(report_stats) 
    95163 File
    95164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95165 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95166 values, outside = self.volume_values() 
    95167 File
    95168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95169 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95170 return self.offset_values(v, n, tf) 
    95171 File
    95172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95173 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95174 values, outside = self.vertex_values(v, xf) 
    95175 File
    95176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95177 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95178 out_of_bounds_list = True) 
    95179 File
    95180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95181 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95182 subregion, step) 
    95183 File
    95184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95185 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95186 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95187 File
    95188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95189 packages/chimerax/map/volume.py", line 1243, in
    95190 matrix_indices_to_xyz_transform 
    95191 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95192 File
    95193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95194 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95195 r = self.subregion(step, subregion) 
    95196 File
    95197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95198 packages/chimerax/map/volume.py", line 1558, in subregion 
    95199 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95200 AttributeError: 'NoneType' object has no attribute 'size' 
    95201  
    95202 AttributeError: 'NoneType' object has no attribute 'size' 
    95203  
    95204 File
    95205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95206 packages/chimerax/map/volume.py", line 1558, in subregion 
    95207 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95208  
    95209 See log for complete Python traceback. 
    95210  
    95211 Traceback (most recent call last): 
    95212 File
    95213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95214 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95215 drew = self.draw_new_frame() 
    95216 File
    95217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95218 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95219 surface.update_clip_caps(view) 
    95220 File
    95221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95222 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95223 subdivision = settings.clipping_cap_subdivision) 
    95224 File
    95225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95226 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95227 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95228 File
    95229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95230 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95231 cm.set_geometry(varray, narray, tarray) 
    95232 File
    95233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95234 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95235 arv() 
    95236 File
    95237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95238 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95239 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95240 File
    95241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95242 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95243 s.vertex_colors = self.vertex_colors(report_stats) 
    95244 File
    95245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95246 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95247 values, outside = self.volume_values() 
    95248 File
    95249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95250 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95251 return self.offset_values(v, n, tf) 
    95252 File
    95253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95254 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95255 values, outside = self.vertex_values(v, xf) 
    95256 File
    95257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95258 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95259 out_of_bounds_list = True) 
    95260 File
    95261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95262 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95263 subregion, step) 
    95264 File
    95265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95266 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95267 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95268 File
    95269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95270 packages/chimerax/map/volume.py", line 1243, in
    95271 matrix_indices_to_xyz_transform 
    95272 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95273 File
    95274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95275 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95276 r = self.subregion(step, subregion) 
    95277 File
    95278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95279 packages/chimerax/map/volume.py", line 1558, in subregion 
    95280 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95281 AttributeError: 'NoneType' object has no attribute 'size' 
    95282  
    95283 AttributeError: 'NoneType' object has no attribute 'size' 
    95284  
    95285 File
    95286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95287 packages/chimerax/map/volume.py", line 1558, in subregion 
    95288 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95289  
    95290 See log for complete Python traceback. 
    95291  
    95292 Traceback (most recent call last): 
    95293 File
    95294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95295 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95296 drew = self.draw_new_frame() 
    95297 File
    95298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95299 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95300 surface.update_clip_caps(view) 
    95301 File
    95302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95303 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95304 subdivision = settings.clipping_cap_subdivision) 
    95305 File
    95306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95307 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95308 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95309 File
    95310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95311 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95312 cm.set_geometry(varray, narray, tarray) 
    95313 File
    95314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95315 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95316 arv() 
    95317 File
    95318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95319 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95320 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95321 File
    95322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95323 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95324 s.vertex_colors = self.vertex_colors(report_stats) 
    95325 File
    95326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95327 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95328 values, outside = self.volume_values() 
    95329 File
    95330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95331 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95332 return self.offset_values(v, n, tf) 
    95333 File
    95334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95335 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95336 values, outside = self.vertex_values(v, xf) 
    95337 File
    95338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95339 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95340 out_of_bounds_list = True) 
    95341 File
    95342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95343 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95344 subregion, step) 
    95345 File
    95346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95347 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95348 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95349 File
    95350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95351 packages/chimerax/map/volume.py", line 1243, in
    95352 matrix_indices_to_xyz_transform 
    95353 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95354 File
    95355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95356 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95357 r = self.subregion(step, subregion) 
    95358 File
    95359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95360 packages/chimerax/map/volume.py", line 1558, in subregion 
    95361 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95362 AttributeError: 'NoneType' object has no attribute 'size' 
    95363  
    95364 AttributeError: 'NoneType' object has no attribute 'size' 
    95365  
    95366 File
    95367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95368 packages/chimerax/map/volume.py", line 1558, in subregion 
    95369 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95370  
    95371 See log for complete Python traceback. 
    95372  
    95373 Traceback (most recent call last): 
    95374 File
    95375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95376 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95377 drew = self.draw_new_frame() 
    95378 File
    95379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95380 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95381 surface.update_clip_caps(view) 
    95382 File
    95383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95384 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95385 subdivision = settings.clipping_cap_subdivision) 
    95386 File
    95387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95388 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95389 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95390 File
    95391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95392 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95393 cm.set_geometry(varray, narray, tarray) 
    95394 File
    95395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95396 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95397 arv() 
    95398 File
    95399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95400 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95401 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95402 File
    95403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95404 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95405 s.vertex_colors = self.vertex_colors(report_stats) 
    95406 File
    95407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95408 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95409 values, outside = self.volume_values() 
    95410 File
    95411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95412 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95413 return self.offset_values(v, n, tf) 
    95414 File
    95415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95416 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95417 values, outside = self.vertex_values(v, xf) 
    95418 File
    95419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95420 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95421 out_of_bounds_list = True) 
    95422 File
    95423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95424 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95425 subregion, step) 
    95426 File
    95427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95428 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95429 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95430 File
    95431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95432 packages/chimerax/map/volume.py", line 1243, in
    95433 matrix_indices_to_xyz_transform 
    95434 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95435 File
    95436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95437 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95438 r = self.subregion(step, subregion) 
    95439 File
    95440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95441 packages/chimerax/map/volume.py", line 1558, in subregion 
    95442 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95443 AttributeError: 'NoneType' object has no attribute 'size' 
    95444  
    95445 AttributeError: 'NoneType' object has no attribute 'size' 
    95446  
    95447 File
    95448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95449 packages/chimerax/map/volume.py", line 1558, in subregion 
    95450 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95451  
    95452 See log for complete Python traceback. 
    95453  
    95454 Traceback (most recent call last): 
    95455 File
    95456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95457 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95458 drew = self.draw_new_frame() 
    95459 File
    95460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95461 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95462 surface.update_clip_caps(view) 
    95463 File
    95464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95465 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95466 subdivision = settings.clipping_cap_subdivision) 
    95467 File
    95468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95469 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95470 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95471 File
    95472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95473 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95474 cm.set_geometry(varray, narray, tarray) 
    95475 File
    95476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95477 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95478 arv() 
    95479 File
    95480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95481 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95482 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95483 File
    95484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95485 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95486 s.vertex_colors = self.vertex_colors(report_stats) 
    95487 File
    95488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95489 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95490 values, outside = self.volume_values() 
    95491 File
    95492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95493 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95494 return self.offset_values(v, n, tf) 
    95495 File
    95496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95497 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95498 values, outside = self.vertex_values(v, xf) 
    95499 File
    95500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95501 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95502 out_of_bounds_list = True) 
    95503 File
    95504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95505 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95506 subregion, step) 
    95507 File
    95508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95509 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95510 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95511 File
    95512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95513 packages/chimerax/map/volume.py", line 1243, in
    95514 matrix_indices_to_xyz_transform 
    95515 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95516 File
    95517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95518 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95519 r = self.subregion(step, subregion) 
    95520 File
    95521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95522 packages/chimerax/map/volume.py", line 1558, in subregion 
    95523 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95524 AttributeError: 'NoneType' object has no attribute 'size' 
    95525  
    95526 AttributeError: 'NoneType' object has no attribute 'size' 
    95527  
    95528 File
    95529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95530 packages/chimerax/map/volume.py", line 1558, in subregion 
    95531 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95532  
    95533 See log for complete Python traceback. 
    95534  
    95535 Traceback (most recent call last): 
    95536 File
    95537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95538 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95539 drew = self.draw_new_frame() 
    95540 File
    95541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95542 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95543 surface.update_clip_caps(view) 
    95544 File
    95545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95546 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95547 subdivision = settings.clipping_cap_subdivision) 
    95548 File
    95549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95550 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95551 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95552 File
    95553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95554 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95555 cm.set_geometry(varray, narray, tarray) 
    95556 File
    95557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95558 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95559 arv() 
    95560 File
    95561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95562 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95563 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95564 File
    95565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95566 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95567 s.vertex_colors = self.vertex_colors(report_stats) 
    95568 File
    95569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95570 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95571 values, outside = self.volume_values() 
    95572 File
    95573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95574 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95575 return self.offset_values(v, n, tf) 
    95576 File
    95577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95578 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95579 values, outside = self.vertex_values(v, xf) 
    95580 File
    95581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95582 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95583 out_of_bounds_list = True) 
    95584 File
    95585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95586 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95587 subregion, step) 
    95588 File
    95589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95590 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95591 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95592 File
    95593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95594 packages/chimerax/map/volume.py", line 1243, in
    95595 matrix_indices_to_xyz_transform 
    95596 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95597 File
    95598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95599 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95600 r = self.subregion(step, subregion) 
    95601 File
    95602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95603 packages/chimerax/map/volume.py", line 1558, in subregion 
    95604 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95605 AttributeError: 'NoneType' object has no attribute 'size' 
    95606  
    95607 AttributeError: 'NoneType' object has no attribute 'size' 
    95608  
    95609 File
    95610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95611 packages/chimerax/map/volume.py", line 1558, in subregion 
    95612 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95613  
    95614 See log for complete Python traceback. 
    95615  
    95616 Traceback (most recent call last): 
    95617 File
    95618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95619 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95620 drew = self.draw_new_frame() 
    95621 File
    95622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95623 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95624 surface.update_clip_caps(view) 
    95625 File
    95626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95627 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95628 subdivision = settings.clipping_cap_subdivision) 
    95629 File
    95630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95631 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95632 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95633 File
    95634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95635 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95636 cm.set_geometry(varray, narray, tarray) 
    95637 File
    95638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95639 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95640 arv() 
    95641 File
    95642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95643 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95644 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95645 File
    95646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95647 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95648 s.vertex_colors = self.vertex_colors(report_stats) 
    95649 File
    95650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95651 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95652 values, outside = self.volume_values() 
    95653 File
    95654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95655 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95656 return self.offset_values(v, n, tf) 
    95657 File
    95658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95659 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95660 values, outside = self.vertex_values(v, xf) 
    95661 File
    95662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95663 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95664 out_of_bounds_list = True) 
    95665 File
    95666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95667 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95668 subregion, step) 
    95669 File
    95670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95671 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95672 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95673 File
    95674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95675 packages/chimerax/map/volume.py", line 1243, in
    95676 matrix_indices_to_xyz_transform 
    95677 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95678 File
    95679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95680 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95681 r = self.subregion(step, subregion) 
    95682 File
    95683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95684 packages/chimerax/map/volume.py", line 1558, in subregion 
    95685 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95686 AttributeError: 'NoneType' object has no attribute 'size' 
    95687  
    95688 AttributeError: 'NoneType' object has no attribute 'size' 
    95689  
    95690 File
    95691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95692 packages/chimerax/map/volume.py", line 1558, in subregion 
    95693 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95694  
    95695 See log for complete Python traceback. 
    95696  
    95697 Traceback (most recent call last): 
    95698 File
    95699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95700 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95701 drew = self.draw_new_frame() 
    95702 File
    95703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95704 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95705 surface.update_clip_caps(view) 
    95706 File
    95707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95708 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95709 subdivision = settings.clipping_cap_subdivision) 
    95710 File
    95711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95712 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95713 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95714 File
    95715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95716 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95717 cm.set_geometry(varray, narray, tarray) 
    95718 File
    95719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95720 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95721 arv() 
    95722 File
    95723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95724 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95725 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95726 File
    95727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95728 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95729 s.vertex_colors = self.vertex_colors(report_stats) 
    95730 File
    95731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95732 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95733 values, outside = self.volume_values() 
    95734 File
    95735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95736 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95737 return self.offset_values(v, n, tf) 
    95738 File
    95739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95740 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95741 values, outside = self.vertex_values(v, xf) 
    95742 File
    95743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95744 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95745 out_of_bounds_list = True) 
    95746 File
    95747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95748 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95749 subregion, step) 
    95750 File
    95751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95752 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95753 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95754 File
    95755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95756 packages/chimerax/map/volume.py", line 1243, in
    95757 matrix_indices_to_xyz_transform 
    95758 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95759 File
    95760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95761 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95762 r = self.subregion(step, subregion) 
    95763 File
    95764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95765 packages/chimerax/map/volume.py", line 1558, in subregion 
    95766 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95767 AttributeError: 'NoneType' object has no attribute 'size' 
    95768  
    95769 AttributeError: 'NoneType' object has no attribute 'size' 
    95770  
    95771 File
    95772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95773 packages/chimerax/map/volume.py", line 1558, in subregion 
    95774 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95775  
    95776 See log for complete Python traceback. 
    95777  
    95778 Traceback (most recent call last): 
    95779 File
    95780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95781 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95782 drew = self.draw_new_frame() 
    95783 File
    95784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95785 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95786 surface.update_clip_caps(view) 
    95787 File
    95788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95789 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95790 subdivision = settings.clipping_cap_subdivision) 
    95791 File
    95792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95793 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95794 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95795 File
    95796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95797 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95798 cm.set_geometry(varray, narray, tarray) 
    95799 File
    95800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95801 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95802 arv() 
    95803 File
    95804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95805 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95806 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95807 File
    95808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95809 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95810 s.vertex_colors = self.vertex_colors(report_stats) 
    95811 File
    95812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95813 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95814 values, outside = self.volume_values() 
    95815 File
    95816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95817 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95818 return self.offset_values(v, n, tf) 
    95819 File
    95820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95821 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95822 values, outside = self.vertex_values(v, xf) 
    95823 File
    95824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95825 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95826 out_of_bounds_list = True) 
    95827 File
    95828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95829 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95830 subregion, step) 
    95831 File
    95832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95833 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95834 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95835 File
    95836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95837 packages/chimerax/map/volume.py", line 1243, in
    95838 matrix_indices_to_xyz_transform 
    95839 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95840 File
    95841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95842 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95843 r = self.subregion(step, subregion) 
    95844 File
    95845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95846 packages/chimerax/map/volume.py", line 1558, in subregion 
    95847 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95848 AttributeError: 'NoneType' object has no attribute 'size' 
    95849  
    95850 AttributeError: 'NoneType' object has no attribute 'size' 
    95851  
    95852 File
    95853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95854 packages/chimerax/map/volume.py", line 1558, in subregion 
    95855 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95856  
    95857 See log for complete Python traceback. 
    95858  
    95859 Traceback (most recent call last): 
    95860 File
    95861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95862 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95863 drew = self.draw_new_frame() 
    95864 File
    95865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95866 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95867 surface.update_clip_caps(view) 
    95868 File
    95869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95870 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95871 subdivision = settings.clipping_cap_subdivision) 
    95872 File
    95873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95874 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95875 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95876 File
    95877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95878 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95879 cm.set_geometry(varray, narray, tarray) 
    95880 File
    95881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95882 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95883 arv() 
    95884 File
    95885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95886 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95887 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95888 File
    95889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95890 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95891 s.vertex_colors = self.vertex_colors(report_stats) 
    95892 File
    95893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95894 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95895 values, outside = self.volume_values() 
    95896 File
    95897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95898 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95899 return self.offset_values(v, n, tf) 
    95900 File
    95901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95902 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95903 values, outside = self.vertex_values(v, xf) 
    95904 File
    95905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95906 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95907 out_of_bounds_list = True) 
    95908 File
    95909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95910 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95911 subregion, step) 
    95912 File
    95913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95914 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95915 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95916 File
    95917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95918 packages/chimerax/map/volume.py", line 1243, in
    95919 matrix_indices_to_xyz_transform 
    95920 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    95921 File
    95922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95923 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    95924 r = self.subregion(step, subregion) 
    95925 File
    95926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95927 packages/chimerax/map/volume.py", line 1558, in subregion 
    95928 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95929 AttributeError: 'NoneType' object has no attribute 'size' 
    95930  
    95931 AttributeError: 'NoneType' object has no attribute 'size' 
    95932  
    95933 File
    95934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95935 packages/chimerax/map/volume.py", line 1558, in subregion 
    95936 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    95937  
    95938 See log for complete Python traceback. 
    95939  
    95940 Traceback (most recent call last): 
    95941 File
    95942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95943 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    95944 drew = self.draw_new_frame() 
    95945 File
    95946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95947 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    95948 surface.update_clip_caps(view) 
    95949 File
    95950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95951 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    95952 subdivision = settings.clipping_cap_subdivision) 
    95953 File
    95954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95955 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    95956 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    95957 File
    95958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95959 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    95960 cm.set_geometry(varray, narray, tarray) 
    95961 File
    95962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95963 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    95964 arv() 
    95965 File
    95966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95967 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    95968 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    95969 File
    95970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95971 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    95972 s.vertex_colors = self.vertex_colors(report_stats) 
    95973 File
    95974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95975 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    95976 values, outside = self.volume_values() 
    95977 File
    95978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95979 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    95980 return self.offset_values(v, n, tf) 
    95981 File
    95982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95983 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    95984 values, outside = self.vertex_values(v, xf) 
    95985 File
    95986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95987 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    95988 out_of_bounds_list = True) 
    95989 File
    95990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95991 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    95992 subregion, step) 
    95993 File
    95994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95995 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    95996 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    95997 File
    95998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    95999 packages/chimerax/map/volume.py", line 1243, in
    96000 matrix_indices_to_xyz_transform 
    96001 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96002 File
    96003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96004 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96005 r = self.subregion(step, subregion) 
    96006 File
    96007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96008 packages/chimerax/map/volume.py", line 1558, in subregion 
    96009 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96010 AttributeError: 'NoneType' object has no attribute 'size' 
    96011  
    96012 AttributeError: 'NoneType' object has no attribute 'size' 
    96013  
    96014 File
    96015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96016 packages/chimerax/map/volume.py", line 1558, in subregion 
    96017 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96018  
    96019 See log for complete Python traceback. 
    96020  
    96021 Traceback (most recent call last): 
    96022 File
    96023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96024 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96025 drew = self.draw_new_frame() 
    96026 File
    96027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96028 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96029 surface.update_clip_caps(view) 
    96030 File
    96031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96032 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96033 subdivision = settings.clipping_cap_subdivision) 
    96034 File
    96035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96036 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96037 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96038 File
    96039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96040 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96041 cm.set_geometry(varray, narray, tarray) 
    96042 File
    96043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96044 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96045 arv() 
    96046 File
    96047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96048 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96049 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96050 File
    96051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96052 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96053 s.vertex_colors = self.vertex_colors(report_stats) 
    96054 File
    96055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96056 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96057 values, outside = self.volume_values() 
    96058 File
    96059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96060 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96061 return self.offset_values(v, n, tf) 
    96062 File
    96063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96064 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96065 values, outside = self.vertex_values(v, xf) 
    96066 File
    96067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96068 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96069 out_of_bounds_list = True) 
    96070 File
    96071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96072 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96073 subregion, step) 
    96074 File
    96075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96076 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96077 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96078 File
    96079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96080 packages/chimerax/map/volume.py", line 1243, in
    96081 matrix_indices_to_xyz_transform 
    96082 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96083 File
    96084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96085 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96086 r = self.subregion(step, subregion) 
    96087 File
    96088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96089 packages/chimerax/map/volume.py", line 1558, in subregion 
    96090 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96091 AttributeError: 'NoneType' object has no attribute 'size' 
    96092  
    96093 AttributeError: 'NoneType' object has no attribute 'size' 
    96094  
    96095 File
    96096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96097 packages/chimerax/map/volume.py", line 1558, in subregion 
    96098 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96099  
    96100 See log for complete Python traceback. 
    96101  
    96102 Traceback (most recent call last): 
    96103 File
    96104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96105 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96106 drew = self.draw_new_frame() 
    96107 File
    96108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96109 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96110 surface.update_clip_caps(view) 
    96111 File
    96112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96113 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96114 subdivision = settings.clipping_cap_subdivision) 
    96115 File
    96116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96117 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96118 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96119 File
    96120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96121 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96122 cm.set_geometry(varray, narray, tarray) 
    96123 File
    96124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96125 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96126 arv() 
    96127 File
    96128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96129 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96130 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96131 File
    96132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96133 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96134 s.vertex_colors = self.vertex_colors(report_stats) 
    96135 File
    96136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96137 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96138 values, outside = self.volume_values() 
    96139 File
    96140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96141 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96142 return self.offset_values(v, n, tf) 
    96143 File
    96144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96145 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96146 values, outside = self.vertex_values(v, xf) 
    96147 File
    96148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96149 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96150 out_of_bounds_list = True) 
    96151 File
    96152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96153 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96154 subregion, step) 
    96155 File
    96156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96157 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96158 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96159 File
    96160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96161 packages/chimerax/map/volume.py", line 1243, in
    96162 matrix_indices_to_xyz_transform 
    96163 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96164 File
    96165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96166 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96167 r = self.subregion(step, subregion) 
    96168 File
    96169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96170 packages/chimerax/map/volume.py", line 1558, in subregion 
    96171 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96172 AttributeError: 'NoneType' object has no attribute 'size' 
    96173  
    96174 AttributeError: 'NoneType' object has no attribute 'size' 
    96175  
    96176 File
    96177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96178 packages/chimerax/map/volume.py", line 1558, in subregion 
    96179 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96180  
    96181 See log for complete Python traceback. 
    96182  
    96183 Traceback (most recent call last): 
    96184 File
    96185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96186 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96187 drew = self.draw_new_frame() 
    96188 File
    96189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96190 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96191 surface.update_clip_caps(view) 
    96192 File
    96193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96194 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96195 subdivision = settings.clipping_cap_subdivision) 
    96196 File
    96197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96198 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96199 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96200 File
    96201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96202 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96203 cm.set_geometry(varray, narray, tarray) 
    96204 File
    96205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96206 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96207 arv() 
    96208 File
    96209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96210 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96211 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96212 File
    96213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96214 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96215 s.vertex_colors = self.vertex_colors(report_stats) 
    96216 File
    96217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96218 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96219 values, outside = self.volume_values() 
    96220 File
    96221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96222 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96223 return self.offset_values(v, n, tf) 
    96224 File
    96225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96226 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96227 values, outside = self.vertex_values(v, xf) 
    96228 File
    96229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96230 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96231 out_of_bounds_list = True) 
    96232 File
    96233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96234 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96235 subregion, step) 
    96236 File
    96237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96238 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96239 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96240 File
    96241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96242 packages/chimerax/map/volume.py", line 1243, in
    96243 matrix_indices_to_xyz_transform 
    96244 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96245 File
    96246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96247 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96248 r = self.subregion(step, subregion) 
    96249 File
    96250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96251 packages/chimerax/map/volume.py", line 1558, in subregion 
    96252 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96253 AttributeError: 'NoneType' object has no attribute 'size' 
    96254  
    96255 AttributeError: 'NoneType' object has no attribute 'size' 
    96256  
    96257 File
    96258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96259 packages/chimerax/map/volume.py", line 1558, in subregion 
    96260 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96261  
    96262 See log for complete Python traceback. 
    96263  
    96264 Traceback (most recent call last): 
    96265 File
    96266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96267 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96268 drew = self.draw_new_frame() 
    96269 File
    96270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96271 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96272 surface.update_clip_caps(view) 
    96273 File
    96274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96275 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96276 subdivision = settings.clipping_cap_subdivision) 
    96277 File
    96278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96279 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96280 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96281 File
    96282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96283 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96284 cm.set_geometry(varray, narray, tarray) 
    96285 File
    96286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96287 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96288 arv() 
    96289 File
    96290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96291 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96292 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96293 File
    96294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96295 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96296 s.vertex_colors = self.vertex_colors(report_stats) 
    96297 File
    96298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96299 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96300 values, outside = self.volume_values() 
    96301 File
    96302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96303 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96304 return self.offset_values(v, n, tf) 
    96305 File
    96306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96307 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96308 values, outside = self.vertex_values(v, xf) 
    96309 File
    96310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96311 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96312 out_of_bounds_list = True) 
    96313 File
    96314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96315 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96316 subregion, step) 
    96317 File
    96318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96319 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96320 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96321 File
    96322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96323 packages/chimerax/map/volume.py", line 1243, in
    96324 matrix_indices_to_xyz_transform 
    96325 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96326 File
    96327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96328 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96329 r = self.subregion(step, subregion) 
    96330 File
    96331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96332 packages/chimerax/map/volume.py", line 1558, in subregion 
    96333 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96334 AttributeError: 'NoneType' object has no attribute 'size' 
    96335  
    96336 AttributeError: 'NoneType' object has no attribute 'size' 
    96337  
    96338 File
    96339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96340 packages/chimerax/map/volume.py", line 1558, in subregion 
    96341 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96342  
    96343 See log for complete Python traceback. 
    96344  
    96345 Traceback (most recent call last): 
    96346 File
    96347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96348 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96349 drew = self.draw_new_frame() 
    96350 File
    96351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96352 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96353 surface.update_clip_caps(view) 
    96354 File
    96355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96356 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96357 subdivision = settings.clipping_cap_subdivision) 
    96358 File
    96359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96360 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96361 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96362 File
    96363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96364 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96365 cm.set_geometry(varray, narray, tarray) 
    96366 File
    96367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96368 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96369 arv() 
    96370 File
    96371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96372 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96373 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96374 File
    96375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96376 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96377 s.vertex_colors = self.vertex_colors(report_stats) 
    96378 File
    96379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96380 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96381 values, outside = self.volume_values() 
    96382 File
    96383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96384 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96385 return self.offset_values(v, n, tf) 
    96386 File
    96387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96388 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96389 values, outside = self.vertex_values(v, xf) 
    96390 File
    96391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96392 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96393 out_of_bounds_list = True) 
    96394 File
    96395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96396 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96397 subregion, step) 
    96398 File
    96399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96400 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96401 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96402 File
    96403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96404 packages/chimerax/map/volume.py", line 1243, in
    96405 matrix_indices_to_xyz_transform 
    96406 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96407 File
    96408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96409 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96410 r = self.subregion(step, subregion) 
    96411 File
    96412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96413 packages/chimerax/map/volume.py", line 1558, in subregion 
    96414 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96415 AttributeError: 'NoneType' object has no attribute 'size' 
    96416  
    96417 AttributeError: 'NoneType' object has no attribute 'size' 
    96418  
    96419 File
    96420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96421 packages/chimerax/map/volume.py", line 1558, in subregion 
    96422 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96423  
    96424 See log for complete Python traceback. 
    96425  
    96426 Traceback (most recent call last): 
    96427 File
    96428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96429 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96430 drew = self.draw_new_frame() 
    96431 File
    96432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96433 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96434 surface.update_clip_caps(view) 
    96435 File
    96436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96437 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96438 subdivision = settings.clipping_cap_subdivision) 
    96439 File
    96440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96441 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96442 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96443 File
    96444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96445 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96446 cm.set_geometry(varray, narray, tarray) 
    96447 File
    96448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96449 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96450 arv() 
    96451 File
    96452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96453 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96454 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96455 File
    96456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96457 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96458 s.vertex_colors = self.vertex_colors(report_stats) 
    96459 File
    96460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96461 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96462 values, outside = self.volume_values() 
    96463 File
    96464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96465 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96466 return self.offset_values(v, n, tf) 
    96467 File
    96468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96469 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96470 values, outside = self.vertex_values(v, xf) 
    96471 File
    96472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96473 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96474 out_of_bounds_list = True) 
    96475 File
    96476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96477 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96478 subregion, step) 
    96479 File
    96480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96481 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96482 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96483 File
    96484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96485 packages/chimerax/map/volume.py", line 1243, in
    96486 matrix_indices_to_xyz_transform 
    96487 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96488 File
    96489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96490 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96491 r = self.subregion(step, subregion) 
    96492 File
    96493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96494 packages/chimerax/map/volume.py", line 1558, in subregion 
    96495 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96496 AttributeError: 'NoneType' object has no attribute 'size' 
    96497  
    96498 AttributeError: 'NoneType' object has no attribute 'size' 
    96499  
    96500 File
    96501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96502 packages/chimerax/map/volume.py", line 1558, in subregion 
    96503 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96504  
    96505 See log for complete Python traceback. 
    96506  
    96507 Traceback (most recent call last): 
    96508 File
    96509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96510 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96511 drew = self.draw_new_frame() 
    96512 File
    96513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96514 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96515 surface.update_clip_caps(view) 
    96516 File
    96517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96518 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96519 subdivision = settings.clipping_cap_subdivision) 
    96520 File
    96521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96522 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96523 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96524 File
    96525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96526 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96527 cm.set_geometry(varray, narray, tarray) 
    96528 File
    96529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96530 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96531 arv() 
    96532 File
    96533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96534 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96535 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96536 File
    96537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96538 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96539 s.vertex_colors = self.vertex_colors(report_stats) 
    96540 File
    96541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96542 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96543 values, outside = self.volume_values() 
    96544 File
    96545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96546 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96547 return self.offset_values(v, n, tf) 
    96548 File
    96549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96550 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96551 values, outside = self.vertex_values(v, xf) 
    96552 File
    96553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96554 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96555 out_of_bounds_list = True) 
    96556 File
    96557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96558 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96559 subregion, step) 
    96560 File
    96561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96562 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96563 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96564 File
    96565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96566 packages/chimerax/map/volume.py", line 1243, in
    96567 matrix_indices_to_xyz_transform 
    96568 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96569 File
    96570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96571 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96572 r = self.subregion(step, subregion) 
    96573 File
    96574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96575 packages/chimerax/map/volume.py", line 1558, in subregion 
    96576 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96577 AttributeError: 'NoneType' object has no attribute 'size' 
    96578  
    96579 AttributeError: 'NoneType' object has no attribute 'size' 
    96580  
    96581 File
    96582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96583 packages/chimerax/map/volume.py", line 1558, in subregion 
    96584 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96585  
    96586 See log for complete Python traceback. 
    96587  
    96588 Traceback (most recent call last): 
    96589 File
    96590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96591 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96592 drew = self.draw_new_frame() 
    96593 File
    96594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96595 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96596 surface.update_clip_caps(view) 
    96597 File
    96598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96599 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96600 subdivision = settings.clipping_cap_subdivision) 
    96601 File
    96602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96603 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96604 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96605 File
    96606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96607 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96608 cm.set_geometry(varray, narray, tarray) 
    96609 File
    96610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96611 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96612 arv() 
    96613 File
    96614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96615 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96616 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96617 File
    96618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96619 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96620 s.vertex_colors = self.vertex_colors(report_stats) 
    96621 File
    96622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96623 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96624 values, outside = self.volume_values() 
    96625 File
    96626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96627 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96628 return self.offset_values(v, n, tf) 
    96629 File
    96630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96631 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96632 values, outside = self.vertex_values(v, xf) 
    96633 File
    96634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96635 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96636 out_of_bounds_list = True) 
    96637 File
    96638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96639 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96640 subregion, step) 
    96641 File
    96642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96643 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96644 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96645 File
    96646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96647 packages/chimerax/map/volume.py", line 1243, in
    96648 matrix_indices_to_xyz_transform 
    96649 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96650 File
    96651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96652 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96653 r = self.subregion(step, subregion) 
    96654 File
    96655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96656 packages/chimerax/map/volume.py", line 1558, in subregion 
    96657 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96658 AttributeError: 'NoneType' object has no attribute 'size' 
    96659  
    96660 AttributeError: 'NoneType' object has no attribute 'size' 
    96661  
    96662 File
    96663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96664 packages/chimerax/map/volume.py", line 1558, in subregion 
    96665 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96666  
    96667 See log for complete Python traceback. 
    96668  
    96669 Traceback (most recent call last): 
    96670 File
    96671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96672 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96673 drew = self.draw_new_frame() 
    96674 File
    96675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96676 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96677 surface.update_clip_caps(view) 
    96678 File
    96679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96680 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96681 subdivision = settings.clipping_cap_subdivision) 
    96682 File
    96683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96684 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96685 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96686 File
    96687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96688 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96689 cm.set_geometry(varray, narray, tarray) 
    96690 File
    96691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96692 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96693 arv() 
    96694 File
    96695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96696 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96697 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96698 File
    96699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96700 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96701 s.vertex_colors = self.vertex_colors(report_stats) 
    96702 File
    96703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96704 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96705 values, outside = self.volume_values() 
    96706 File
    96707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96708 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96709 return self.offset_values(v, n, tf) 
    96710 File
    96711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96712 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96713 values, outside = self.vertex_values(v, xf) 
    96714 File
    96715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96716 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96717 out_of_bounds_list = True) 
    96718 File
    96719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96720 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96721 subregion, step) 
    96722 File
    96723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96724 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96725 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96726 File
    96727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96728 packages/chimerax/map/volume.py", line 1243, in
    96729 matrix_indices_to_xyz_transform 
    96730 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96731 File
    96732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96733 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96734 r = self.subregion(step, subregion) 
    96735 File
    96736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96737 packages/chimerax/map/volume.py", line 1558, in subregion 
    96738 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96739 AttributeError: 'NoneType' object has no attribute 'size' 
    96740  
    96741 AttributeError: 'NoneType' object has no attribute 'size' 
    96742  
    96743 File
    96744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96745 packages/chimerax/map/volume.py", line 1558, in subregion 
    96746 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96747  
    96748 See log for complete Python traceback. 
    96749  
    96750 Traceback (most recent call last): 
    96751 File
    96752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96753 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96754 drew = self.draw_new_frame() 
    96755 File
    96756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96757 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96758 surface.update_clip_caps(view) 
    96759 File
    96760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96761 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96762 subdivision = settings.clipping_cap_subdivision) 
    96763 File
    96764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96765 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96766 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96767 File
    96768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96769 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96770 cm.set_geometry(varray, narray, tarray) 
    96771 File
    96772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96773 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96774 arv() 
    96775 File
    96776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96777 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96778 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96779 File
    96780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96781 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96782 s.vertex_colors = self.vertex_colors(report_stats) 
    96783 File
    96784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96785 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96786 values, outside = self.volume_values() 
    96787 File
    96788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96789 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96790 return self.offset_values(v, n, tf) 
    96791 File
    96792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96793 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96794 values, outside = self.vertex_values(v, xf) 
    96795 File
    96796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96797 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96798 out_of_bounds_list = True) 
    96799 File
    96800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96801 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96802 subregion, step) 
    96803 File
    96804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96805 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96806 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96807 File
    96808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96809 packages/chimerax/map/volume.py", line 1243, in
    96810 matrix_indices_to_xyz_transform 
    96811 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96812 File
    96813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96814 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96815 r = self.subregion(step, subregion) 
    96816 File
    96817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96818 packages/chimerax/map/volume.py", line 1558, in subregion 
    96819 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96820 AttributeError: 'NoneType' object has no attribute 'size' 
    96821  
    96822 AttributeError: 'NoneType' object has no attribute 'size' 
    96823  
    96824 File
    96825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96826 packages/chimerax/map/volume.py", line 1558, in subregion 
    96827 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96828  
    96829 See log for complete Python traceback. 
    96830  
    96831 Traceback (most recent call last): 
    96832 File
    96833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96834 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96835 drew = self.draw_new_frame() 
    96836 File
    96837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96838 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96839 surface.update_clip_caps(view) 
    96840 File
    96841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96842 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96843 subdivision = settings.clipping_cap_subdivision) 
    96844 File
    96845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96846 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96847 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96848 File
    96849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96850 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96851 cm.set_geometry(varray, narray, tarray) 
    96852 File
    96853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96854 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96855 arv() 
    96856 File
    96857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96858 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96859 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96860 File
    96861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96862 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96863 s.vertex_colors = self.vertex_colors(report_stats) 
    96864 File
    96865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96866 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96867 values, outside = self.volume_values() 
    96868 File
    96869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96870 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96871 return self.offset_values(v, n, tf) 
    96872 File
    96873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96874 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96875 values, outside = self.vertex_values(v, xf) 
    96876 File
    96877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96878 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96879 out_of_bounds_list = True) 
    96880 File
    96881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96882 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96883 subregion, step) 
    96884 File
    96885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96886 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96887 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96888 File
    96889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96890 packages/chimerax/map/volume.py", line 1243, in
    96891 matrix_indices_to_xyz_transform 
    96892 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96893 File
    96894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96895 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96896 r = self.subregion(step, subregion) 
    96897 File
    96898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96899 packages/chimerax/map/volume.py", line 1558, in subregion 
    96900 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96901 AttributeError: 'NoneType' object has no attribute 'size' 
    96902  
    96903 AttributeError: 'NoneType' object has no attribute 'size' 
    96904  
    96905 File
    96906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96907 packages/chimerax/map/volume.py", line 1558, in subregion 
    96908 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96909  
    96910 See log for complete Python traceback. 
    96911  
    96912 Traceback (most recent call last): 
    96913 File
    96914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96915 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96916 drew = self.draw_new_frame() 
    96917 File
    96918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96919 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    96920 surface.update_clip_caps(view) 
    96921 File
    96922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96923 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    96924 subdivision = settings.clipping_cap_subdivision) 
    96925 File
    96926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96927 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    96928 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    96929 File
    96930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96931 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    96932 cm.set_geometry(varray, narray, tarray) 
    96933 File
    96934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96935 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    96936 arv() 
    96937 File
    96938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96939 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    96940 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    96941 File
    96942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96943 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    96944 s.vertex_colors = self.vertex_colors(report_stats) 
    96945 File
    96946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96947 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    96948 values, outside = self.volume_values() 
    96949 File
    96950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96951 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    96952 return self.offset_values(v, n, tf) 
    96953 File
    96954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96955 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    96956 values, outside = self.vertex_values(v, xf) 
    96957 File
    96958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96959 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    96960 out_of_bounds_list = True) 
    96961 File
    96962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96963 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    96964 subregion, step) 
    96965 File
    96966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96967 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    96968 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    96969 File
    96970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96971 packages/chimerax/map/volume.py", line 1243, in
    96972 matrix_indices_to_xyz_transform 
    96973 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    96974 File
    96975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96976 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    96977 r = self.subregion(step, subregion) 
    96978 File
    96979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96980 packages/chimerax/map/volume.py", line 1558, in subregion 
    96981 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96982 AttributeError: 'NoneType' object has no attribute 'size' 
    96983  
    96984 AttributeError: 'NoneType' object has no attribute 'size' 
    96985  
    96986 File
    96987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96988 packages/chimerax/map/volume.py", line 1558, in subregion 
    96989 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    96990  
    96991 See log for complete Python traceback. 
    96992  
    96993 Traceback (most recent call last): 
    96994 File
    96995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    96996 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    96997 drew = self.draw_new_frame() 
    96998 File
    96999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97000 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97001 surface.update_clip_caps(view) 
    97002 File
    97003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97004 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97005 subdivision = settings.clipping_cap_subdivision) 
    97006 File
    97007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97008 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97009 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97010 File
    97011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97012 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97013 cm.set_geometry(varray, narray, tarray) 
    97014 File
    97015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97016 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97017 arv() 
    97018 File
    97019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97020 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97021 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97022 File
    97023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97024 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97025 s.vertex_colors = self.vertex_colors(report_stats) 
    97026 File
    97027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97028 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97029 values, outside = self.volume_values() 
    97030 File
    97031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97032 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97033 return self.offset_values(v, n, tf) 
    97034 File
    97035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97036 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97037 values, outside = self.vertex_values(v, xf) 
    97038 File
    97039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97040 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97041 out_of_bounds_list = True) 
    97042 File
    97043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97044 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97045 subregion, step) 
    97046 File
    97047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97048 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97049 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97050 File
    97051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97052 packages/chimerax/map/volume.py", line 1243, in
    97053 matrix_indices_to_xyz_transform 
    97054 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97055 File
    97056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97057 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97058 r = self.subregion(step, subregion) 
    97059 File
    97060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97061 packages/chimerax/map/volume.py", line 1558, in subregion 
    97062 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97063 AttributeError: 'NoneType' object has no attribute 'size' 
    97064  
    97065 AttributeError: 'NoneType' object has no attribute 'size' 
    97066  
    97067 File
    97068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97069 packages/chimerax/map/volume.py", line 1558, in subregion 
    97070 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97071  
    97072 See log for complete Python traceback. 
    97073  
    97074 Traceback (most recent call last): 
    97075 File
    97076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97077 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97078 drew = self.draw_new_frame() 
    97079 File
    97080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97081 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97082 surface.update_clip_caps(view) 
    97083 File
    97084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97085 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97086 subdivision = settings.clipping_cap_subdivision) 
    97087 File
    97088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97089 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97090 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97091 File
    97092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97093 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97094 cm.set_geometry(varray, narray, tarray) 
    97095 File
    97096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97097 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97098 arv() 
    97099 File
    97100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97101 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97102 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97103 File
    97104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97105 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97106 s.vertex_colors = self.vertex_colors(report_stats) 
    97107 File
    97108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97109 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97110 values, outside = self.volume_values() 
    97111 File
    97112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97113 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97114 return self.offset_values(v, n, tf) 
    97115 File
    97116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97117 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97118 values, outside = self.vertex_values(v, xf) 
    97119 File
    97120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97121 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97122 out_of_bounds_list = True) 
    97123 File
    97124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97125 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97126 subregion, step) 
    97127 File
    97128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97129 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97130 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97131 File
    97132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97133 packages/chimerax/map/volume.py", line 1243, in
    97134 matrix_indices_to_xyz_transform 
    97135 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97136 File
    97137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97138 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97139 r = self.subregion(step, subregion) 
    97140 File
    97141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97142 packages/chimerax/map/volume.py", line 1558, in subregion 
    97143 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97144 AttributeError: 'NoneType' object has no attribute 'size' 
    97145  
    97146 AttributeError: 'NoneType' object has no attribute 'size' 
    97147  
    97148 File
    97149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97150 packages/chimerax/map/volume.py", line 1558, in subregion 
    97151 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97152  
    97153 See log for complete Python traceback. 
    97154  
    97155 Traceback (most recent call last): 
    97156 File
    97157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97158 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97159 drew = self.draw_new_frame() 
    97160 File
    97161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97162 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97163 surface.update_clip_caps(view) 
    97164 File
    97165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97166 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97167 subdivision = settings.clipping_cap_subdivision) 
    97168 File
    97169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97170 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97171 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97172 File
    97173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97174 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97175 cm.set_geometry(varray, narray, tarray) 
    97176 File
    97177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97178 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97179 arv() 
    97180 File
    97181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97182 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97183 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97184 File
    97185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97186 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97187 s.vertex_colors = self.vertex_colors(report_stats) 
    97188 File
    97189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97190 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97191 values, outside = self.volume_values() 
    97192 File
    97193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97194 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97195 return self.offset_values(v, n, tf) 
    97196 File
    97197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97198 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97199 values, outside = self.vertex_values(v, xf) 
    97200 File
    97201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97202 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97203 out_of_bounds_list = True) 
    97204 File
    97205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97206 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97207 subregion, step) 
    97208 File
    97209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97210 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97211 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97212 File
    97213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97214 packages/chimerax/map/volume.py", line 1243, in
    97215 matrix_indices_to_xyz_transform 
    97216 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97217 File
    97218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97219 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97220 r = self.subregion(step, subregion) 
    97221 File
    97222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97223 packages/chimerax/map/volume.py", line 1558, in subregion 
    97224 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97225 AttributeError: 'NoneType' object has no attribute 'size' 
    97226  
    97227 AttributeError: 'NoneType' object has no attribute 'size' 
    97228  
    97229 File
    97230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97231 packages/chimerax/map/volume.py", line 1558, in subregion 
    97232 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97233  
    97234 See log for complete Python traceback. 
    97235  
    97236 Traceback (most recent call last): 
    97237 File
    97238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97239 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97240 drew = self.draw_new_frame() 
    97241 File
    97242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97243 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97244 surface.update_clip_caps(view) 
    97245 File
    97246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97247 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97248 subdivision = settings.clipping_cap_subdivision) 
    97249 File
    97250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97251 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97252 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97253 File
    97254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97255 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97256 cm.set_geometry(varray, narray, tarray) 
    97257 File
    97258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97259 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97260 arv() 
    97261 File
    97262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97263 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97264 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97265 File
    97266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97267 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97268 s.vertex_colors = self.vertex_colors(report_stats) 
    97269 File
    97270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97271 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97272 values, outside = self.volume_values() 
    97273 File
    97274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97275 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97276 return self.offset_values(v, n, tf) 
    97277 File
    97278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97279 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97280 values, outside = self.vertex_values(v, xf) 
    97281 File
    97282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97283 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97284 out_of_bounds_list = True) 
    97285 File
    97286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97287 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97288 subregion, step) 
    97289 File
    97290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97291 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97292 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97293 File
    97294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97295 packages/chimerax/map/volume.py", line 1243, in
    97296 matrix_indices_to_xyz_transform 
    97297 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97298 File
    97299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97300 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97301 r = self.subregion(step, subregion) 
    97302 File
    97303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97304 packages/chimerax/map/volume.py", line 1558, in subregion 
    97305 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97306 AttributeError: 'NoneType' object has no attribute 'size' 
    97307  
    97308 AttributeError: 'NoneType' object has no attribute 'size' 
    97309  
    97310 File
    97311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97312 packages/chimerax/map/volume.py", line 1558, in subregion 
    97313 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97314  
    97315 See log for complete Python traceback. 
    97316  
    97317 Traceback (most recent call last): 
    97318 File
    97319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97320 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97321 drew = self.draw_new_frame() 
    97322 File
    97323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97324 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97325 surface.update_clip_caps(view) 
    97326 File
    97327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97328 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97329 subdivision = settings.clipping_cap_subdivision) 
    97330 File
    97331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97332 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97333 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97334 File
    97335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97336 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97337 cm.set_geometry(varray, narray, tarray) 
    97338 File
    97339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97340 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97341 arv() 
    97342 File
    97343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97344 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97345 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97346 File
    97347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97348 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97349 s.vertex_colors = self.vertex_colors(report_stats) 
    97350 File
    97351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97352 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97353 values, outside = self.volume_values() 
    97354 File
    97355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97356 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97357 return self.offset_values(v, n, tf) 
    97358 File
    97359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97360 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97361 values, outside = self.vertex_values(v, xf) 
    97362 File
    97363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97364 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97365 out_of_bounds_list = True) 
    97366 File
    97367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97368 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97369 subregion, step) 
    97370 File
    97371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97372 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97373 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97374 File
    97375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97376 packages/chimerax/map/volume.py", line 1243, in
    97377 matrix_indices_to_xyz_transform 
    97378 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97379 File
    97380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97381 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97382 r = self.subregion(step, subregion) 
    97383 File
    97384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97385 packages/chimerax/map/volume.py", line 1558, in subregion 
    97386 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97387 AttributeError: 'NoneType' object has no attribute 'size' 
    97388  
    97389 AttributeError: 'NoneType' object has no attribute 'size' 
    97390  
    97391 File
    97392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97393 packages/chimerax/map/volume.py", line 1558, in subregion 
    97394 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97395  
    97396 See log for complete Python traceback. 
    97397  
    97398 Traceback (most recent call last): 
    97399 File
    97400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97401 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97402 drew = self.draw_new_frame() 
    97403 File
    97404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97405 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97406 surface.update_clip_caps(view) 
    97407 File
    97408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97409 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97410 subdivision = settings.clipping_cap_subdivision) 
    97411 File
    97412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97413 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97414 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97415 File
    97416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97417 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97418 cm.set_geometry(varray, narray, tarray) 
    97419 File
    97420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97421 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97422 arv() 
    97423 File
    97424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97425 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97426 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97427 File
    97428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97429 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97430 s.vertex_colors = self.vertex_colors(report_stats) 
    97431 File
    97432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97433 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97434 values, outside = self.volume_values() 
    97435 File
    97436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97437 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97438 return self.offset_values(v, n, tf) 
    97439 File
    97440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97441 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97442 values, outside = self.vertex_values(v, xf) 
    97443 File
    97444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97445 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97446 out_of_bounds_list = True) 
    97447 File
    97448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97449 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97450 subregion, step) 
    97451 File
    97452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97453 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97454 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97455 File
    97456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97457 packages/chimerax/map/volume.py", line 1243, in
    97458 matrix_indices_to_xyz_transform 
    97459 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97460 File
    97461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97462 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97463 r = self.subregion(step, subregion) 
    97464 File
    97465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97466 packages/chimerax/map/volume.py", line 1558, in subregion 
    97467 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97468 AttributeError: 'NoneType' object has no attribute 'size' 
    97469  
    97470 AttributeError: 'NoneType' object has no attribute 'size' 
    97471  
    97472 File
    97473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97474 packages/chimerax/map/volume.py", line 1558, in subregion 
    97475 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97476  
    97477 See log for complete Python traceback. 
    97478  
    97479 Traceback (most recent call last): 
    97480 File
    97481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97482 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97483 drew = self.draw_new_frame() 
    97484 File
    97485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97486 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97487 surface.update_clip_caps(view) 
    97488 File
    97489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97490 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97491 subdivision = settings.clipping_cap_subdivision) 
    97492 File
    97493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97494 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97495 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97496 File
    97497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97498 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97499 cm.set_geometry(varray, narray, tarray) 
    97500 File
    97501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97502 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97503 arv() 
    97504 File
    97505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97506 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97507 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97508 File
    97509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97510 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97511 s.vertex_colors = self.vertex_colors(report_stats) 
    97512 File
    97513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97514 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97515 values, outside = self.volume_values() 
    97516 File
    97517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97518 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97519 return self.offset_values(v, n, tf) 
    97520 File
    97521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97522 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97523 values, outside = self.vertex_values(v, xf) 
    97524 File
    97525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97526 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97527 out_of_bounds_list = True) 
    97528 File
    97529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97530 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97531 subregion, step) 
    97532 File
    97533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97534 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97535 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97536 File
    97537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97538 packages/chimerax/map/volume.py", line 1243, in
    97539 matrix_indices_to_xyz_transform 
    97540 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97541 File
    97542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97543 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97544 r = self.subregion(step, subregion) 
    97545 File
    97546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97547 packages/chimerax/map/volume.py", line 1558, in subregion 
    97548 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97549 AttributeError: 'NoneType' object has no attribute 'size' 
    97550  
    97551 AttributeError: 'NoneType' object has no attribute 'size' 
    97552  
    97553 File
    97554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97555 packages/chimerax/map/volume.py", line 1558, in subregion 
    97556 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97557  
    97558 See log for complete Python traceback. 
    97559  
    97560 Traceback (most recent call last): 
    97561 File
    97562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97563 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97564 drew = self.draw_new_frame() 
    97565 File
    97566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97567 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97568 surface.update_clip_caps(view) 
    97569 File
    97570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97571 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97572 subdivision = settings.clipping_cap_subdivision) 
    97573 File
    97574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97575 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97576 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97577 File
    97578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97579 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97580 cm.set_geometry(varray, narray, tarray) 
    97581 File
    97582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97583 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97584 arv() 
    97585 File
    97586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97587 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97588 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97589 File
    97590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97591 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97592 s.vertex_colors = self.vertex_colors(report_stats) 
    97593 File
    97594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97595 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97596 values, outside = self.volume_values() 
    97597 File
    97598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97599 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97600 return self.offset_values(v, n, tf) 
    97601 File
    97602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97603 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97604 values, outside = self.vertex_values(v, xf) 
    97605 File
    97606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97607 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97608 out_of_bounds_list = True) 
    97609 File
    97610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97611 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97612 subregion, step) 
    97613 File
    97614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97615 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97616 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97617 File
    97618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97619 packages/chimerax/map/volume.py", line 1243, in
    97620 matrix_indices_to_xyz_transform 
    97621 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97622 File
    97623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97624 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97625 r = self.subregion(step, subregion) 
    97626 File
    97627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97628 packages/chimerax/map/volume.py", line 1558, in subregion 
    97629 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97630 AttributeError: 'NoneType' object has no attribute 'size' 
    97631  
    97632 AttributeError: 'NoneType' object has no attribute 'size' 
    97633  
    97634 File
    97635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97636 packages/chimerax/map/volume.py", line 1558, in subregion 
    97637 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97638  
    97639 See log for complete Python traceback. 
    97640  
    97641 Traceback (most recent call last): 
    97642 File
    97643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97644 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97645 drew = self.draw_new_frame() 
    97646 File
    97647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97648 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97649 surface.update_clip_caps(view) 
    97650 File
    97651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97652 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97653 subdivision = settings.clipping_cap_subdivision) 
    97654 File
    97655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97656 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97657 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97658 File
    97659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97660 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97661 cm.set_geometry(varray, narray, tarray) 
    97662 File
    97663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97664 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97665 arv() 
    97666 File
    97667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97668 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97669 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97670 File
    97671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97672 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97673 s.vertex_colors = self.vertex_colors(report_stats) 
    97674 File
    97675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97676 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97677 values, outside = self.volume_values() 
    97678 File
    97679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97680 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97681 return self.offset_values(v, n, tf) 
    97682 File
    97683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97684 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97685 values, outside = self.vertex_values(v, xf) 
    97686 File
    97687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97688 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97689 out_of_bounds_list = True) 
    97690 File
    97691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97692 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97693 subregion, step) 
    97694 File
    97695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97696 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97697 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97698 File
    97699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97700 packages/chimerax/map/volume.py", line 1243, in
    97701 matrix_indices_to_xyz_transform 
    97702 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97703 File
    97704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97705 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97706 r = self.subregion(step, subregion) 
    97707 File
    97708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97709 packages/chimerax/map/volume.py", line 1558, in subregion 
    97710 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97711 AttributeError: 'NoneType' object has no attribute 'size' 
    97712  
    97713 AttributeError: 'NoneType' object has no attribute 'size' 
    97714  
    97715 File
    97716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97717 packages/chimerax/map/volume.py", line 1558, in subregion 
    97718 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97719  
    97720 See log for complete Python traceback. 
    97721  
    97722 Traceback (most recent call last): 
    97723 File
    97724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97725 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97726 drew = self.draw_new_frame() 
    97727 File
    97728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97729 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97730 surface.update_clip_caps(view) 
    97731 File
    97732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97733 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97734 subdivision = settings.clipping_cap_subdivision) 
    97735 File
    97736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97737 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97738 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97739 File
    97740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97741 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97742 cm.set_geometry(varray, narray, tarray) 
    97743 File
    97744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97745 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97746 arv() 
    97747 File
    97748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97749 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97750 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97751 File
    97752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97753 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97754 s.vertex_colors = self.vertex_colors(report_stats) 
    97755 File
    97756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97757 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97758 values, outside = self.volume_values() 
    97759 File
    97760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97761 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97762 return self.offset_values(v, n, tf) 
    97763 File
    97764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97765 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97766 values, outside = self.vertex_values(v, xf) 
    97767 File
    97768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97769 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97770 out_of_bounds_list = True) 
    97771 File
    97772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97773 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97774 subregion, step) 
    97775 File
    97776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97777 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97778 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97779 File
    97780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97781 packages/chimerax/map/volume.py", line 1243, in
    97782 matrix_indices_to_xyz_transform 
    97783 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97784 File
    97785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97786 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97787 r = self.subregion(step, subregion) 
    97788 File
    97789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97790 packages/chimerax/map/volume.py", line 1558, in subregion 
    97791 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97792 AttributeError: 'NoneType' object has no attribute 'size' 
    97793  
    97794 AttributeError: 'NoneType' object has no attribute 'size' 
    97795  
    97796 File
    97797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97798 packages/chimerax/map/volume.py", line 1558, in subregion 
    97799 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97800  
    97801 See log for complete Python traceback. 
    97802  
    97803 Traceback (most recent call last): 
    97804 File
    97805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97806 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97807 drew = self.draw_new_frame() 
    97808 File
    97809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97810 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97811 surface.update_clip_caps(view) 
    97812 File
    97813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97814 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97815 subdivision = settings.clipping_cap_subdivision) 
    97816 File
    97817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97818 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97819 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97820 File
    97821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97822 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97823 cm.set_geometry(varray, narray, tarray) 
    97824 File
    97825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97826 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97827 arv() 
    97828 File
    97829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97830 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97831 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97832 File
    97833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97834 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97835 s.vertex_colors = self.vertex_colors(report_stats) 
    97836 File
    97837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97838 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97839 values, outside = self.volume_values() 
    97840 File
    97841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97842 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97843 return self.offset_values(v, n, tf) 
    97844 File
    97845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97846 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97847 values, outside = self.vertex_values(v, xf) 
    97848 File
    97849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97850 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97851 out_of_bounds_list = True) 
    97852 File
    97853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97854 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97855 subregion, step) 
    97856 File
    97857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97858 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97859 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97860 File
    97861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97862 packages/chimerax/map/volume.py", line 1243, in
    97863 matrix_indices_to_xyz_transform 
    97864 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97865 File
    97866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97867 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97868 r = self.subregion(step, subregion) 
    97869 File
    97870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97871 packages/chimerax/map/volume.py", line 1558, in subregion 
    97872 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97873 AttributeError: 'NoneType' object has no attribute 'size' 
    97874  
    97875 AttributeError: 'NoneType' object has no attribute 'size' 
    97876  
    97877 File
    97878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97879 packages/chimerax/map/volume.py", line 1558, in subregion 
    97880 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97881  
    97882 See log for complete Python traceback. 
    97883  
    97884 Traceback (most recent call last): 
    97885 File
    97886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97887 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97888 drew = self.draw_new_frame() 
    97889 File
    97890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97891 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97892 surface.update_clip_caps(view) 
    97893 File
    97894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97895 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97896 subdivision = settings.clipping_cap_subdivision) 
    97897 File
    97898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97899 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97900 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97901 File
    97902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97903 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97904 cm.set_geometry(varray, narray, tarray) 
    97905 File
    97906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97907 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97908 arv() 
    97909 File
    97910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97911 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97912 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97913 File
    97914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97915 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97916 s.vertex_colors = self.vertex_colors(report_stats) 
    97917 File
    97918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97919 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    97920 values, outside = self.volume_values() 
    97921 File
    97922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97923 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    97924 return self.offset_values(v, n, tf) 
    97925 File
    97926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97927 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    97928 values, outside = self.vertex_values(v, xf) 
    97929 File
    97930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97931 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    97932 out_of_bounds_list = True) 
    97933 File
    97934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97935 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    97936 subregion, step) 
    97937 File
    97938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97939 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    97940 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    97941 File
    97942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97943 packages/chimerax/map/volume.py", line 1243, in
    97944 matrix_indices_to_xyz_transform 
    97945 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    97946 File
    97947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97948 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    97949 r = self.subregion(step, subregion) 
    97950 File
    97951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97952 packages/chimerax/map/volume.py", line 1558, in subregion 
    97953 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97954 AttributeError: 'NoneType' object has no attribute 'size' 
    97955  
    97956 AttributeError: 'NoneType' object has no attribute 'size' 
    97957  
    97958 File
    97959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97960 packages/chimerax/map/volume.py", line 1558, in subregion 
    97961 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    97962  
    97963 See log for complete Python traceback. 
    97964  
    97965 Traceback (most recent call last): 
    97966 File
    97967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97968 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    97969 drew = self.draw_new_frame() 
    97970 File
    97971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97972 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    97973 surface.update_clip_caps(view) 
    97974 File
    97975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97976 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    97977 subdivision = settings.clipping_cap_subdivision) 
    97978 File
    97979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97980 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    97981 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    97982 File
    97983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97984 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    97985 cm.set_geometry(varray, narray, tarray) 
    97986 File
    97987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97988 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    97989 arv() 
    97990 File
    97991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97992 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    97993 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    97994 File
    97995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    97996 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    97997 s.vertex_colors = self.vertex_colors(report_stats) 
    97998 File
    97999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98000 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98001 values, outside = self.volume_values() 
    98002 File
    98003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98004 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98005 return self.offset_values(v, n, tf) 
    98006 File
    98007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98008 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98009 values, outside = self.vertex_values(v, xf) 
    98010 File
    98011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98012 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98013 out_of_bounds_list = True) 
    98014 File
    98015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98016 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98017 subregion, step) 
    98018 File
    98019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98020 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98021 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98022 File
    98023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98024 packages/chimerax/map/volume.py", line 1243, in
    98025 matrix_indices_to_xyz_transform 
    98026 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98027 File
    98028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98029 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98030 r = self.subregion(step, subregion) 
    98031 File
    98032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98033 packages/chimerax/map/volume.py", line 1558, in subregion 
    98034 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98035 AttributeError: 'NoneType' object has no attribute 'size' 
    98036  
    98037 AttributeError: 'NoneType' object has no attribute 'size' 
    98038  
    98039 File
    98040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98041 packages/chimerax/map/volume.py", line 1558, in subregion 
    98042 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98043  
    98044 See log for complete Python traceback. 
    98045  
    98046 Traceback (most recent call last): 
    98047 File
    98048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98049 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98050 drew = self.draw_new_frame() 
    98051 File
    98052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98053 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98054 surface.update_clip_caps(view) 
    98055 File
    98056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98057 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98058 subdivision = settings.clipping_cap_subdivision) 
    98059 File
    98060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98061 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98062 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98063 File
    98064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98065 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98066 cm.set_geometry(varray, narray, tarray) 
    98067 File
    98068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98069 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98070 arv() 
    98071 File
    98072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98073 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98074 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98075 File
    98076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98077 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98078 s.vertex_colors = self.vertex_colors(report_stats) 
    98079 File
    98080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98081 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98082 values, outside = self.volume_values() 
    98083 File
    98084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98085 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98086 return self.offset_values(v, n, tf) 
    98087 File
    98088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98089 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98090 values, outside = self.vertex_values(v, xf) 
    98091 File
    98092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98093 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98094 out_of_bounds_list = True) 
    98095 File
    98096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98097 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98098 subregion, step) 
    98099 File
    98100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98101 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98102 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98103 File
    98104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98105 packages/chimerax/map/volume.py", line 1243, in
    98106 matrix_indices_to_xyz_transform 
    98107 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98108 File
    98109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98110 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98111 r = self.subregion(step, subregion) 
    98112 File
    98113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98114 packages/chimerax/map/volume.py", line 1558, in subregion 
    98115 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98116 AttributeError: 'NoneType' object has no attribute 'size' 
    98117  
    98118 AttributeError: 'NoneType' object has no attribute 'size' 
    98119  
    98120 File
    98121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98122 packages/chimerax/map/volume.py", line 1558, in subregion 
    98123 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98124  
    98125 See log for complete Python traceback. 
    98126  
    98127 Traceback (most recent call last): 
    98128 File
    98129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98130 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98131 drew = self.draw_new_frame() 
    98132 File
    98133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98134 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98135 surface.update_clip_caps(view) 
    98136 File
    98137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98138 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98139 subdivision = settings.clipping_cap_subdivision) 
    98140 File
    98141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98142 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98143 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98144 File
    98145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98146 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98147 cm.set_geometry(varray, narray, tarray) 
    98148 File
    98149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98150 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98151 arv() 
    98152 File
    98153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98154 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98155 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98156 File
    98157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98158 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98159 s.vertex_colors = self.vertex_colors(report_stats) 
    98160 File
    98161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98162 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98163 values, outside = self.volume_values() 
    98164 File
    98165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98166 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98167 return self.offset_values(v, n, tf) 
    98168 File
    98169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98170 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98171 values, outside = self.vertex_values(v, xf) 
    98172 File
    98173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98174 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98175 out_of_bounds_list = True) 
    98176 File
    98177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98178 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98179 subregion, step) 
    98180 File
    98181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98182 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98183 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98184 File
    98185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98186 packages/chimerax/map/volume.py", line 1243, in
    98187 matrix_indices_to_xyz_transform 
    98188 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98189 File
    98190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98191 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98192 r = self.subregion(step, subregion) 
    98193 File
    98194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98195 packages/chimerax/map/volume.py", line 1558, in subregion 
    98196 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98197 AttributeError: 'NoneType' object has no attribute 'size' 
    98198  
    98199 AttributeError: 'NoneType' object has no attribute 'size' 
    98200  
    98201 File
    98202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98203 packages/chimerax/map/volume.py", line 1558, in subregion 
    98204 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98205  
    98206 See log for complete Python traceback. 
    98207  
    98208 Traceback (most recent call last): 
    98209 File
    98210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98211 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98212 drew = self.draw_new_frame() 
    98213 File
    98214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98215 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98216 surface.update_clip_caps(view) 
    98217 File
    98218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98219 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98220 subdivision = settings.clipping_cap_subdivision) 
    98221 File
    98222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98223 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98224 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98225 File
    98226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98227 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98228 cm.set_geometry(varray, narray, tarray) 
    98229 File
    98230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98231 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98232 arv() 
    98233 File
    98234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98235 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98236 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98237 File
    98238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98239 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98240 s.vertex_colors = self.vertex_colors(report_stats) 
    98241 File
    98242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98243 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98244 values, outside = self.volume_values() 
    98245 File
    98246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98247 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98248 return self.offset_values(v, n, tf) 
    98249 File
    98250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98251 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98252 values, outside = self.vertex_values(v, xf) 
    98253 File
    98254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98255 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98256 out_of_bounds_list = True) 
    98257 File
    98258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98259 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98260 subregion, step) 
    98261 File
    98262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98263 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98264 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98265 File
    98266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98267 packages/chimerax/map/volume.py", line 1243, in
    98268 matrix_indices_to_xyz_transform 
    98269 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98270 File
    98271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98272 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98273 r = self.subregion(step, subregion) 
    98274 File
    98275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98276 packages/chimerax/map/volume.py", line 1558, in subregion 
    98277 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98278 AttributeError: 'NoneType' object has no attribute 'size' 
    98279  
    98280 AttributeError: 'NoneType' object has no attribute 'size' 
    98281  
    98282 File
    98283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98284 packages/chimerax/map/volume.py", line 1558, in subregion 
    98285 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98286  
    98287 See log for complete Python traceback. 
    98288  
    98289 Traceback (most recent call last): 
    98290 File
    98291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98292 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98293 drew = self.draw_new_frame() 
    98294 File
    98295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98296 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98297 surface.update_clip_caps(view) 
    98298 File
    98299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98300 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98301 subdivision = settings.clipping_cap_subdivision) 
    98302 File
    98303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98304 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98305 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98306 File
    98307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98308 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98309 cm.set_geometry(varray, narray, tarray) 
    98310 File
    98311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98312 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98313 arv() 
    98314 File
    98315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98316 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98317 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98318 File
    98319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98320 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98321 s.vertex_colors = self.vertex_colors(report_stats) 
    98322 File
    98323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98324 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98325 values, outside = self.volume_values() 
    98326 File
    98327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98328 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98329 return self.offset_values(v, n, tf) 
    98330 File
    98331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98332 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98333 values, outside = self.vertex_values(v, xf) 
    98334 File
    98335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98336 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98337 out_of_bounds_list = True) 
    98338 File
    98339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98340 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98341 subregion, step) 
    98342 File
    98343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98344 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98345 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98346 File
    98347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98348 packages/chimerax/map/volume.py", line 1243, in
    98349 matrix_indices_to_xyz_transform 
    98350 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98351 File
    98352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98353 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98354 r = self.subregion(step, subregion) 
    98355 File
    98356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98357 packages/chimerax/map/volume.py", line 1558, in subregion 
    98358 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98359 AttributeError: 'NoneType' object has no attribute 'size' 
    98360  
    98361 AttributeError: 'NoneType' object has no attribute 'size' 
    98362  
    98363 File
    98364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98365 packages/chimerax/map/volume.py", line 1558, in subregion 
    98366 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98367  
    98368 See log for complete Python traceback. 
    98369  
    98370 Traceback (most recent call last): 
    98371 File
    98372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98373 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98374 drew = self.draw_new_frame() 
    98375 File
    98376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98377 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98378 surface.update_clip_caps(view) 
    98379 File
    98380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98381 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98382 subdivision = settings.clipping_cap_subdivision) 
    98383 File
    98384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98385 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98386 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98387 File
    98388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98389 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98390 cm.set_geometry(varray, narray, tarray) 
    98391 File
    98392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98393 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98394 arv() 
    98395 File
    98396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98397 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98398 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98399 File
    98400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98401 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98402 s.vertex_colors = self.vertex_colors(report_stats) 
    98403 File
    98404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98405 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98406 values, outside = self.volume_values() 
    98407 File
    98408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98409 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98410 return self.offset_values(v, n, tf) 
    98411 File
    98412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98413 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98414 values, outside = self.vertex_values(v, xf) 
    98415 File
    98416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98417 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98418 out_of_bounds_list = True) 
    98419 File
    98420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98421 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98422 subregion, step) 
    98423 File
    98424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98425 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98426 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98427 File
    98428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98429 packages/chimerax/map/volume.py", line 1243, in
    98430 matrix_indices_to_xyz_transform 
    98431 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98432 File
    98433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98434 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98435 r = self.subregion(step, subregion) 
    98436 File
    98437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98438 packages/chimerax/map/volume.py", line 1558, in subregion 
    98439 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98440 AttributeError: 'NoneType' object has no attribute 'size' 
    98441  
    98442 AttributeError: 'NoneType' object has no attribute 'size' 
    98443  
    98444 File
    98445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98446 packages/chimerax/map/volume.py", line 1558, in subregion 
    98447 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98448  
    98449 See log for complete Python traceback. 
    98450  
    98451 Traceback (most recent call last): 
    98452 File
    98453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98454 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98455 drew = self.draw_new_frame() 
    98456 File
    98457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98458 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98459 surface.update_clip_caps(view) 
    98460 File
    98461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98462 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98463 subdivision = settings.clipping_cap_subdivision) 
    98464 File
    98465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98466 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98467 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98468 File
    98469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98470 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98471 cm.set_geometry(varray, narray, tarray) 
    98472 File
    98473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98474 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98475 arv() 
    98476 File
    98477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98478 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98479 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98480 File
    98481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98482 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98483 s.vertex_colors = self.vertex_colors(report_stats) 
    98484 File
    98485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98486 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98487 values, outside = self.volume_values() 
    98488 File
    98489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98490 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98491 return self.offset_values(v, n, tf) 
    98492 File
    98493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98494 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98495 values, outside = self.vertex_values(v, xf) 
    98496 File
    98497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98498 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98499 out_of_bounds_list = True) 
    98500 File
    98501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98502 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98503 subregion, step) 
    98504 File
    98505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98506 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98507 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98508 File
    98509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98510 packages/chimerax/map/volume.py", line 1243, in
    98511 matrix_indices_to_xyz_transform 
    98512 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98513 File
    98514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98515 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98516 r = self.subregion(step, subregion) 
    98517 File
    98518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98519 packages/chimerax/map/volume.py", line 1558, in subregion 
    98520 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98521 AttributeError: 'NoneType' object has no attribute 'size' 
    98522  
    98523 AttributeError: 'NoneType' object has no attribute 'size' 
    98524  
    98525 File
    98526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98527 packages/chimerax/map/volume.py", line 1558, in subregion 
    98528 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98529  
    98530 See log for complete Python traceback. 
    98531  
    98532 Traceback (most recent call last): 
    98533 File
    98534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98535 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98536 drew = self.draw_new_frame() 
    98537 File
    98538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98539 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98540 surface.update_clip_caps(view) 
    98541 File
    98542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98543 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98544 subdivision = settings.clipping_cap_subdivision) 
    98545 File
    98546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98547 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98548 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98549 File
    98550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98551 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98552 cm.set_geometry(varray, narray, tarray) 
    98553 File
    98554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98555 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98556 arv() 
    98557 File
    98558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98559 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98560 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98561 File
    98562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98563 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98564 s.vertex_colors = self.vertex_colors(report_stats) 
    98565 File
    98566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98567 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98568 values, outside = self.volume_values() 
    98569 File
    98570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98571 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98572 return self.offset_values(v, n, tf) 
    98573 File
    98574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98575 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98576 values, outside = self.vertex_values(v, xf) 
    98577 File
    98578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98579 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98580 out_of_bounds_list = True) 
    98581 File
    98582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98583 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98584 subregion, step) 
    98585 File
    98586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98587 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98588 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98589 File
    98590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98591 packages/chimerax/map/volume.py", line 1243, in
    98592 matrix_indices_to_xyz_transform 
    98593 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98594 File
    98595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98596 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98597 r = self.subregion(step, subregion) 
    98598 File
    98599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98600 packages/chimerax/map/volume.py", line 1558, in subregion 
    98601 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98602 AttributeError: 'NoneType' object has no attribute 'size' 
    98603  
    98604 AttributeError: 'NoneType' object has no attribute 'size' 
    98605  
    98606 File
    98607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98608 packages/chimerax/map/volume.py", line 1558, in subregion 
    98609 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98610  
    98611 See log for complete Python traceback. 
    98612  
    98613 Traceback (most recent call last): 
    98614 File
    98615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98616 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98617 drew = self.draw_new_frame() 
    98618 File
    98619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98620 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98621 surface.update_clip_caps(view) 
    98622 File
    98623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98624 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98625 subdivision = settings.clipping_cap_subdivision) 
    98626 File
    98627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98628 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98629 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98630 File
    98631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98632 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98633 cm.set_geometry(varray, narray, tarray) 
    98634 File
    98635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98636 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98637 arv() 
    98638 File
    98639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98640 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98641 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98642 File
    98643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98644 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98645 s.vertex_colors = self.vertex_colors(report_stats) 
    98646 File
    98647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98648 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98649 values, outside = self.volume_values() 
    98650 File
    98651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98652 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98653 return self.offset_values(v, n, tf) 
    98654 File
    98655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98656 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98657 values, outside = self.vertex_values(v, xf) 
    98658 File
    98659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98660 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98661 out_of_bounds_list = True) 
    98662 File
    98663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98664 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98665 subregion, step) 
    98666 File
    98667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98668 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98669 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98670 File
    98671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98672 packages/chimerax/map/volume.py", line 1243, in
    98673 matrix_indices_to_xyz_transform 
    98674 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98675 File
    98676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98677 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98678 r = self.subregion(step, subregion) 
    98679 File
    98680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98681 packages/chimerax/map/volume.py", line 1558, in subregion 
    98682 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98683 AttributeError: 'NoneType' object has no attribute 'size' 
    98684  
    98685 AttributeError: 'NoneType' object has no attribute 'size' 
    98686  
    98687 File
    98688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98689 packages/chimerax/map/volume.py", line 1558, in subregion 
    98690 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98691  
    98692 See log for complete Python traceback. 
    98693  
    98694 Traceback (most recent call last): 
    98695 File
    98696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98697 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98698 drew = self.draw_new_frame() 
    98699 File
    98700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98701 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98702 surface.update_clip_caps(view) 
    98703 File
    98704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98705 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98706 subdivision = settings.clipping_cap_subdivision) 
    98707 File
    98708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98709 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98710 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98711 File
    98712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98713 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98714 cm.set_geometry(varray, narray, tarray) 
    98715 File
    98716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98717 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98718 arv() 
    98719 File
    98720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98721 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98722 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98723 File
    98724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98725 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98726 s.vertex_colors = self.vertex_colors(report_stats) 
    98727 File
    98728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98729 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98730 values, outside = self.volume_values() 
    98731 File
    98732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98733 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98734 return self.offset_values(v, n, tf) 
    98735 File
    98736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98737 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98738 values, outside = self.vertex_values(v, xf) 
    98739 File
    98740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98741 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98742 out_of_bounds_list = True) 
    98743 File
    98744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98745 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98746 subregion, step) 
    98747 File
    98748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98749 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98750 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98751 File
    98752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98753 packages/chimerax/map/volume.py", line 1243, in
    98754 matrix_indices_to_xyz_transform 
    98755 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98756 File
    98757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98758 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98759 r = self.subregion(step, subregion) 
    98760 File
    98761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98762 packages/chimerax/map/volume.py", line 1558, in subregion 
    98763 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98764 AttributeError: 'NoneType' object has no attribute 'size' 
    98765  
    98766 AttributeError: 'NoneType' object has no attribute 'size' 
    98767  
    98768 File
    98769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98770 packages/chimerax/map/volume.py", line 1558, in subregion 
    98771 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98772  
    98773 See log for complete Python traceback. 
    98774  
    98775 Traceback (most recent call last): 
    98776 File
    98777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98778 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98779 drew = self.draw_new_frame() 
    98780 File
    98781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98782 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98783 surface.update_clip_caps(view) 
    98784 File
    98785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98786 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98787 subdivision = settings.clipping_cap_subdivision) 
    98788 File
    98789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98790 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98791 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98792 File
    98793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98794 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98795 cm.set_geometry(varray, narray, tarray) 
    98796 File
    98797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98798 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98799 arv() 
    98800 File
    98801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98802 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98803 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98804 File
    98805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98806 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98807 s.vertex_colors = self.vertex_colors(report_stats) 
    98808 File
    98809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98810 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98811 values, outside = self.volume_values() 
    98812 File
    98813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98814 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98815 return self.offset_values(v, n, tf) 
    98816 File
    98817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98818 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98819 values, outside = self.vertex_values(v, xf) 
    98820 File
    98821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98822 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98823 out_of_bounds_list = True) 
    98824 File
    98825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98826 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98827 subregion, step) 
    98828 File
    98829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98830 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98831 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98832 File
    98833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98834 packages/chimerax/map/volume.py", line 1243, in
    98835 matrix_indices_to_xyz_transform 
    98836 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98837 File
    98838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98839 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98840 r = self.subregion(step, subregion) 
    98841 File
    98842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98843 packages/chimerax/map/volume.py", line 1558, in subregion 
    98844 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98845 AttributeError: 'NoneType' object has no attribute 'size' 
    98846  
    98847 AttributeError: 'NoneType' object has no attribute 'size' 
    98848  
    98849 File
    98850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98851 packages/chimerax/map/volume.py", line 1558, in subregion 
    98852 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98853  
    98854 See log for complete Python traceback. 
    98855  
    98856 Traceback (most recent call last): 
    98857 File
    98858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98859 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98860 drew = self.draw_new_frame() 
    98861 File
    98862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98863 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98864 surface.update_clip_caps(view) 
    98865 File
    98866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98867 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98868 subdivision = settings.clipping_cap_subdivision) 
    98869 File
    98870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98871 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98872 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98873 File
    98874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98875 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98876 cm.set_geometry(varray, narray, tarray) 
    98877 File
    98878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98879 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98880 arv() 
    98881 File
    98882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98883 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98884 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98885 File
    98886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98887 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98888 s.vertex_colors = self.vertex_colors(report_stats) 
    98889 File
    98890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98891 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98892 values, outside = self.volume_values() 
    98893 File
    98894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98895 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98896 return self.offset_values(v, n, tf) 
    98897 File
    98898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98899 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98900 values, outside = self.vertex_values(v, xf) 
    98901 File
    98902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98903 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98904 out_of_bounds_list = True) 
    98905 File
    98906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98907 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98908 subregion, step) 
    98909 File
    98910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98911 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98912 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98913 File
    98914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98915 packages/chimerax/map/volume.py", line 1243, in
    98916 matrix_indices_to_xyz_transform 
    98917 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98918 File
    98919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98920 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    98921 r = self.subregion(step, subregion) 
    98922 File
    98923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98924 packages/chimerax/map/volume.py", line 1558, in subregion 
    98925 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98926 AttributeError: 'NoneType' object has no attribute 'size' 
    98927  
    98928 AttributeError: 'NoneType' object has no attribute 'size' 
    98929  
    98930 File
    98931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98932 packages/chimerax/map/volume.py", line 1558, in subregion 
    98933 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    98934  
    98935 See log for complete Python traceback. 
    98936  
    98937 Traceback (most recent call last): 
    98938 File
    98939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98940 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    98941 drew = self.draw_new_frame() 
    98942 File
    98943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98944 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    98945 surface.update_clip_caps(view) 
    98946 File
    98947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98948 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    98949 subdivision = settings.clipping_cap_subdivision) 
    98950 File
    98951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98952 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    98953 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    98954 File
    98955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98956 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    98957 cm.set_geometry(varray, narray, tarray) 
    98958 File
    98959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98960 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    98961 arv() 
    98962 File
    98963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98964 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    98965 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    98966 File
    98967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98968 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    98969 s.vertex_colors = self.vertex_colors(report_stats) 
    98970 File
    98971 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98972 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    98973 values, outside = self.volume_values() 
    98974 File
    98975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98976 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    98977 return self.offset_values(v, n, tf) 
    98978 File
    98979 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98980 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    98981 values, outside = self.vertex_values(v, xf) 
    98982 File
    98983 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98984 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    98985 out_of_bounds_list = True) 
    98986 File
    98987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98988 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    98989 subregion, step) 
    98990 File
    98991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98992 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    98993 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    98994 File
    98995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    98996 packages/chimerax/map/volume.py", line 1243, in
    98997 matrix_indices_to_xyz_transform 
    98998 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    98999 File
    99000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99001 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99002 r = self.subregion(step, subregion) 
    99003 File
    99004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99005 packages/chimerax/map/volume.py", line 1558, in subregion 
    99006 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99007 AttributeError: 'NoneType' object has no attribute 'size' 
    99008  
    99009 AttributeError: 'NoneType' object has no attribute 'size' 
    99010  
    99011 File
    99012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99013 packages/chimerax/map/volume.py", line 1558, in subregion 
    99014 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99015  
    99016 See log for complete Python traceback. 
    99017  
    99018 Traceback (most recent call last): 
    99019 File
    99020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99021 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99022 drew = self.draw_new_frame() 
    99023 File
    99024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99025 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99026 surface.update_clip_caps(view) 
    99027 File
    99028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99029 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99030 subdivision = settings.clipping_cap_subdivision) 
    99031 File
    99032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99033 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99034 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99035 File
    99036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99037 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99038 cm.set_geometry(varray, narray, tarray) 
    99039 File
    99040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99041 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99042 arv() 
    99043 File
    99044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99045 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99046 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99047 File
    99048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99049 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99050 s.vertex_colors = self.vertex_colors(report_stats) 
    99051 File
    99052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99053 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99054 values, outside = self.volume_values() 
    99055 File
    99056 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99057 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99058 return self.offset_values(v, n, tf) 
    99059 File
    99060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99061 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99062 values, outside = self.vertex_values(v, xf) 
    99063 File
    99064 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99065 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99066 out_of_bounds_list = True) 
    99067 File
    99068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99069 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99070 subregion, step) 
    99071 File
    99072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99073 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99074 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99075 File
    99076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99077 packages/chimerax/map/volume.py", line 1243, in
    99078 matrix_indices_to_xyz_transform 
    99079 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99080 File
    99081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99082 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99083 r = self.subregion(step, subregion) 
    99084 File
    99085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99086 packages/chimerax/map/volume.py", line 1558, in subregion 
    99087 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99088 AttributeError: 'NoneType' object has no attribute 'size' 
    99089  
    99090 AttributeError: 'NoneType' object has no attribute 'size' 
    99091  
    99092 File
    99093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99094 packages/chimerax/map/volume.py", line 1558, in subregion 
    99095 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99096  
    99097 See log for complete Python traceback. 
    99098  
    99099 Traceback (most recent call last): 
    99100 File
    99101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99102 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99103 drew = self.draw_new_frame() 
    99104 File
    99105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99106 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99107 surface.update_clip_caps(view) 
    99108 File
    99109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99110 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99111 subdivision = settings.clipping_cap_subdivision) 
    99112 File
    99113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99114 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99115 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99116 File
    99117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99118 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99119 cm.set_geometry(varray, narray, tarray) 
    99120 File
    99121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99122 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99123 arv() 
    99124 File
    99125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99126 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99127 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99128 File
    99129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99130 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99131 s.vertex_colors = self.vertex_colors(report_stats) 
    99132 File
    99133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99134 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99135 values, outside = self.volume_values() 
    99136 File
    99137 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99138 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99139 return self.offset_values(v, n, tf) 
    99140 File
    99141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99142 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99143 values, outside = self.vertex_values(v, xf) 
    99144 File
    99145 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99146 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99147 out_of_bounds_list = True) 
    99148 File
    99149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99150 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99151 subregion, step) 
    99152 File
    99153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99154 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99155 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99156 File
    99157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99158 packages/chimerax/map/volume.py", line 1243, in
    99159 matrix_indices_to_xyz_transform 
    99160 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99161 File
    99162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99163 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99164 r = self.subregion(step, subregion) 
    99165 File
    99166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99167 packages/chimerax/map/volume.py", line 1558, in subregion 
    99168 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99169 AttributeError: 'NoneType' object has no attribute 'size' 
    99170  
    99171 AttributeError: 'NoneType' object has no attribute 'size' 
    99172  
    99173 File
    99174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99175 packages/chimerax/map/volume.py", line 1558, in subregion 
    99176 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99177  
    99178 See log for complete Python traceback. 
    99179  
    99180 Traceback (most recent call last): 
    99181 File
    99182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99183 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99184 drew = self.draw_new_frame() 
    99185 File
    99186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99187 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99188 surface.update_clip_caps(view) 
    99189 File
    99190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99191 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99192 subdivision = settings.clipping_cap_subdivision) 
    99193 File
    99194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99195 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99196 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99197 File
    99198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99199 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99200 cm.set_geometry(varray, narray, tarray) 
    99201 File
    99202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99203 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99204 arv() 
    99205 File
    99206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99207 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99208 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99209 File
    99210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99211 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99212 s.vertex_colors = self.vertex_colors(report_stats) 
    99213 File
    99214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99215 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99216 values, outside = self.volume_values() 
    99217 File
    99218 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99219 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99220 return self.offset_values(v, n, tf) 
    99221 File
    99222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99223 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99224 values, outside = self.vertex_values(v, xf) 
    99225 File
    99226 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99227 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99228 out_of_bounds_list = True) 
    99229 File
    99230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99231 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99232 subregion, step) 
    99233 File
    99234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99235 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99236 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99237 File
    99238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99239 packages/chimerax/map/volume.py", line 1243, in
    99240 matrix_indices_to_xyz_transform 
    99241 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99242 File
    99243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99244 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99245 r = self.subregion(step, subregion) 
    99246 File
    99247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99248 packages/chimerax/map/volume.py", line 1558, in subregion 
    99249 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99250 AttributeError: 'NoneType' object has no attribute 'size' 
    99251  
    99252 AttributeError: 'NoneType' object has no attribute 'size' 
    99253  
    99254 File
    99255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99256 packages/chimerax/map/volume.py", line 1558, in subregion 
    99257 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99258  
    99259 See log for complete Python traceback. 
    99260  
    99261 Traceback (most recent call last): 
    99262 File
    99263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99264 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99265 drew = self.draw_new_frame() 
    99266 File
    99267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99268 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99269 surface.update_clip_caps(view) 
    99270 File
    99271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99272 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99273 subdivision = settings.clipping_cap_subdivision) 
    99274 File
    99275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99276 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99277 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99278 File
    99279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99280 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99281 cm.set_geometry(varray, narray, tarray) 
    99282 File
    99283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99284 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99285 arv() 
    99286 File
    99287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99288 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99289 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99290 File
    99291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99292 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99293 s.vertex_colors = self.vertex_colors(report_stats) 
    99294 File
    99295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99296 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99297 values, outside = self.volume_values() 
    99298 File
    99299 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99300 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99301 return self.offset_values(v, n, tf) 
    99302 File
    99303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99304 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99305 values, outside = self.vertex_values(v, xf) 
    99306 File
    99307 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99308 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99309 out_of_bounds_list = True) 
    99310 File
    99311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99312 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99313 subregion, step) 
    99314 File
    99315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99316 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99317 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99318 File
    99319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99320 packages/chimerax/map/volume.py", line 1243, in
    99321 matrix_indices_to_xyz_transform 
    99322 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99323 File
    99324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99325 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99326 r = self.subregion(step, subregion) 
    99327 File
    99328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99329 packages/chimerax/map/volume.py", line 1558, in subregion 
    99330 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99331 AttributeError: 'NoneType' object has no attribute 'size' 
    99332  
    99333 AttributeError: 'NoneType' object has no attribute 'size' 
    99334  
    99335 File
    99336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99337 packages/chimerax/map/volume.py", line 1558, in subregion 
    99338 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99339  
    99340 See log for complete Python traceback. 
    99341  
    99342 Traceback (most recent call last): 
    99343 File
    99344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99345 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99346 drew = self.draw_new_frame() 
    99347 File
    99348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99349 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99350 surface.update_clip_caps(view) 
    99351 File
    99352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99353 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99354 subdivision = settings.clipping_cap_subdivision) 
    99355 File
    99356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99357 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99358 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99359 File
    99360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99361 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99362 cm.set_geometry(varray, narray, tarray) 
    99363 File
    99364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99365 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99366 arv() 
    99367 File
    99368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99369 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99370 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99371 File
    99372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99373 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99374 s.vertex_colors = self.vertex_colors(report_stats) 
    99375 File
    99376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99377 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99378 values, outside = self.volume_values() 
    99379 File
    99380 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99381 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99382 return self.offset_values(v, n, tf) 
    99383 File
    99384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99385 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99386 values, outside = self.vertex_values(v, xf) 
    99387 File
    99388 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99389 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99390 out_of_bounds_list = True) 
    99391 File
    99392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99393 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99394 subregion, step) 
    99395 File
    99396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99397 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99398 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99399 File
    99400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99401 packages/chimerax/map/volume.py", line 1243, in
    99402 matrix_indices_to_xyz_transform 
    99403 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99404 File
    99405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99406 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99407 r = self.subregion(step, subregion) 
    99408 File
    99409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99410 packages/chimerax/map/volume.py", line 1558, in subregion 
    99411 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99412 AttributeError: 'NoneType' object has no attribute 'size' 
    99413  
    99414 AttributeError: 'NoneType' object has no attribute 'size' 
    99415  
    99416 File
    99417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99418 packages/chimerax/map/volume.py", line 1558, in subregion 
    99419 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99420  
    99421 See log for complete Python traceback. 
    99422  
    99423 Traceback (most recent call last): 
    99424 File
    99425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99426 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99427 drew = self.draw_new_frame() 
    99428 File
    99429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99430 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99431 surface.update_clip_caps(view) 
    99432 File
    99433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99434 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99435 subdivision = settings.clipping_cap_subdivision) 
    99436 File
    99437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99438 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99439 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99440 File
    99441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99442 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99443 cm.set_geometry(varray, narray, tarray) 
    99444 File
    99445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99446 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99447 arv() 
    99448 File
    99449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99450 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99451 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99452 File
    99453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99454 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99455 s.vertex_colors = self.vertex_colors(report_stats) 
    99456 File
    99457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99458 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99459 values, outside = self.volume_values() 
    99460 File
    99461 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99462 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99463 return self.offset_values(v, n, tf) 
    99464 File
    99465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99466 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99467 values, outside = self.vertex_values(v, xf) 
    99468 File
    99469 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99470 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99471 out_of_bounds_list = True) 
    99472 File
    99473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99474 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99475 subregion, step) 
    99476 File
    99477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99478 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99479 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99480 File
    99481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99482 packages/chimerax/map/volume.py", line 1243, in
    99483 matrix_indices_to_xyz_transform 
    99484 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99485 File
    99486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99487 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99488 r = self.subregion(step, subregion) 
    99489 File
    99490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99491 packages/chimerax/map/volume.py", line 1558, in subregion 
    99492 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99493 AttributeError: 'NoneType' object has no attribute 'size' 
    99494  
    99495 AttributeError: 'NoneType' object has no attribute 'size' 
    99496  
    99497 File
    99498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99499 packages/chimerax/map/volume.py", line 1558, in subregion 
    99500 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99501  
    99502 See log for complete Python traceback. 
    99503  
    99504 Traceback (most recent call last): 
    99505 File
    99506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99507 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99508 drew = self.draw_new_frame() 
    99509 File
    99510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99511 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99512 surface.update_clip_caps(view) 
    99513 File
    99514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99515 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99516 subdivision = settings.clipping_cap_subdivision) 
    99517 File
    99518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99519 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99520 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99521 File
    99522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99523 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99524 cm.set_geometry(varray, narray, tarray) 
    99525 File
    99526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99527 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99528 arv() 
    99529 File
    99530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99531 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99532 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99533 File
    99534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99535 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99536 s.vertex_colors = self.vertex_colors(report_stats) 
    99537 File
    99538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99539 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99540 values, outside = self.volume_values() 
    99541 File
    99542 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99543 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99544 return self.offset_values(v, n, tf) 
    99545 File
    99546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99547 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99548 values, outside = self.vertex_values(v, xf) 
    99549 File
    99550 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99551 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99552 out_of_bounds_list = True) 
    99553 File
    99554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99555 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99556 subregion, step) 
    99557 File
    99558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99559 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99560 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99561 File
    99562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99563 packages/chimerax/map/volume.py", line 1243, in
    99564 matrix_indices_to_xyz_transform 
    99565 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99566 File
    99567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99568 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99569 r = self.subregion(step, subregion) 
    99570 File
    99571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99572 packages/chimerax/map/volume.py", line 1558, in subregion 
    99573 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99574 AttributeError: 'NoneType' object has no attribute 'size' 
    99575  
    99576 AttributeError: 'NoneType' object has no attribute 'size' 
    99577  
    99578 File
    99579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99580 packages/chimerax/map/volume.py", line 1558, in subregion 
    99581 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99582  
    99583 See log for complete Python traceback. 
    99584  
    99585 Traceback (most recent call last): 
    99586 File
    99587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99588 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99589 drew = self.draw_new_frame() 
    99590 File
    99591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99592 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99593 surface.update_clip_caps(view) 
    99594 File
    99595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99596 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99597 subdivision = settings.clipping_cap_subdivision) 
    99598 File
    99599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99600 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99601 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99602 File
    99603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99604 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99605 cm.set_geometry(varray, narray, tarray) 
    99606 File
    99607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99608 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99609 arv() 
    99610 File
    99611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99612 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99613 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99614 File
    99615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99616 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99617 s.vertex_colors = self.vertex_colors(report_stats) 
    99618 File
    99619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99620 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99621 values, outside = self.volume_values() 
    99622 File
    99623 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99624 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99625 return self.offset_values(v, n, tf) 
    99626 File
    99627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99628 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99629 values, outside = self.vertex_values(v, xf) 
    99630 File
    99631 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99632 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99633 out_of_bounds_list = True) 
    99634 File
    99635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99636 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99637 subregion, step) 
    99638 File
    99639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99640 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99641 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99642 File
    99643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99644 packages/chimerax/map/volume.py", line 1243, in
    99645 matrix_indices_to_xyz_transform 
    99646 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99647 File
    99648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99649 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99650 r = self.subregion(step, subregion) 
    99651 File
    99652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99653 packages/chimerax/map/volume.py", line 1558, in subregion 
    99654 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99655 AttributeError: 'NoneType' object has no attribute 'size' 
    99656  
    99657 AttributeError: 'NoneType' object has no attribute 'size' 
    99658  
    99659 File
    99660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99661 packages/chimerax/map/volume.py", line 1558, in subregion 
    99662 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99663  
    99664 See log for complete Python traceback. 
    99665  
    99666 Traceback (most recent call last): 
    99667 File
    99668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99669 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99670 drew = self.draw_new_frame() 
    99671 File
    99672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99673 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99674 surface.update_clip_caps(view) 
    99675 File
    99676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99677 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99678 subdivision = settings.clipping_cap_subdivision) 
    99679 File
    99680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99681 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99682 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99683 File
    99684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99685 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99686 cm.set_geometry(varray, narray, tarray) 
    99687 File
    99688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99689 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99690 arv() 
    99691 File
    99692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99693 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99694 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99695 File
    99696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99697 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99698 s.vertex_colors = self.vertex_colors(report_stats) 
    99699 File
    99700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99701 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99702 values, outside = self.volume_values() 
    99703 File
    99704 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99705 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99706 return self.offset_values(v, n, tf) 
    99707 File
    99708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99709 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99710 values, outside = self.vertex_values(v, xf) 
    99711 File
    99712 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99713 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99714 out_of_bounds_list = True) 
    99715 File
    99716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99717 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99718 subregion, step) 
    99719 File
    99720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99721 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99722 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99723 File
    99724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99725 packages/chimerax/map/volume.py", line 1243, in
    99726 matrix_indices_to_xyz_transform 
    99727 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99728 File
    99729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99730 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99731 r = self.subregion(step, subregion) 
    99732 File
    99733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99734 packages/chimerax/map/volume.py", line 1558, in subregion 
    99735 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99736 AttributeError: 'NoneType' object has no attribute 'size' 
    99737  
    99738 AttributeError: 'NoneType' object has no attribute 'size' 
    99739  
    99740 File
    99741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99742 packages/chimerax/map/volume.py", line 1558, in subregion 
    99743 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99744  
    99745 See log for complete Python traceback. 
    99746  
    99747 Traceback (most recent call last): 
    99748 File
    99749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99750 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99751 drew = self.draw_new_frame() 
    99752 File
    99753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99754 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99755 surface.update_clip_caps(view) 
    99756 File
    99757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99758 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99759 subdivision = settings.clipping_cap_subdivision) 
    99760 File
    99761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99762 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99763 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99764 File
    99765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99766 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99767 cm.set_geometry(varray, narray, tarray) 
    99768 File
    99769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99770 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99771 arv() 
    99772 File
    99773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99774 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99775 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99776 File
    99777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99778 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99779 s.vertex_colors = self.vertex_colors(report_stats) 
    99780 File
    99781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99782 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99783 values, outside = self.volume_values() 
    99784 File
    99785 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99786 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99787 return self.offset_values(v, n, tf) 
    99788 File
    99789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99790 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99791 values, outside = self.vertex_values(v, xf) 
    99792 File
    99793 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99794 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99795 out_of_bounds_list = True) 
    99796 File
    99797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99798 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99799 subregion, step) 
    99800 File
    99801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99802 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99803 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99804 File
    99805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99806 packages/chimerax/map/volume.py", line 1243, in
    99807 matrix_indices_to_xyz_transform 
    99808 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99809 File
    99810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99811 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99812 r = self.subregion(step, subregion) 
    99813 File
    99814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99815 packages/chimerax/map/volume.py", line 1558, in subregion 
    99816 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99817 AttributeError: 'NoneType' object has no attribute 'size' 
    99818  
    99819 AttributeError: 'NoneType' object has no attribute 'size' 
    99820  
    99821 File
    99822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99823 packages/chimerax/map/volume.py", line 1558, in subregion 
    99824 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99825  
    99826 See log for complete Python traceback. 
    99827  
    99828 Traceback (most recent call last): 
    99829 File
    99830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99831 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99832 drew = self.draw_new_frame() 
    99833 File
    99834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99835 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99836 surface.update_clip_caps(view) 
    99837 File
    99838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99839 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99840 subdivision = settings.clipping_cap_subdivision) 
    99841 File
    99842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99843 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99844 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99845 File
    99846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99847 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99848 cm.set_geometry(varray, narray, tarray) 
    99849 File
    99850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99851 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99852 arv() 
    99853 File
    99854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99855 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99856 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99857 File
    99858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99859 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99860 s.vertex_colors = self.vertex_colors(report_stats) 
    99861 File
    99862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99863 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99864 values, outside = self.volume_values() 
    99865 File
    99866 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99867 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99868 return self.offset_values(v, n, tf) 
    99869 File
    99870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99871 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99872 values, outside = self.vertex_values(v, xf) 
    99873 File
    99874 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99875 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99876 out_of_bounds_list = True) 
    99877 File
    99878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99879 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99880 subregion, step) 
    99881 File
    99882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99883 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99884 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99885 File
    99886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99887 packages/chimerax/map/volume.py", line 1243, in
    99888 matrix_indices_to_xyz_transform 
    99889 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99890 File
    99891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99892 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99893 r = self.subregion(step, subregion) 
    99894 File
    99895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99896 packages/chimerax/map/volume.py", line 1558, in subregion 
    99897 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99898 AttributeError: 'NoneType' object has no attribute 'size' 
    99899  
    99900 AttributeError: 'NoneType' object has no attribute 'size' 
    99901  
    99902 File
    99903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99904 packages/chimerax/map/volume.py", line 1558, in subregion 
    99905 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99906  
    99907 See log for complete Python traceback. 
    99908  
    99909 Traceback (most recent call last): 
    99910 File
    99911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99912 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99913 drew = self.draw_new_frame() 
    99914 File
    99915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99916 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99917 surface.update_clip_caps(view) 
    99918 File
    99919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99920 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    99921 subdivision = settings.clipping_cap_subdivision) 
    99922 File
    99923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99924 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    99925 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    99926 File
    99927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99928 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    99929 cm.set_geometry(varray, narray, tarray) 
    99930 File
    99931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99932 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    99933 arv() 
    99934 File
    99935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99936 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    99937 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    99938 File
    99939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99940 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    99941 s.vertex_colors = self.vertex_colors(report_stats) 
    99942 File
    99943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99944 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    99945 values, outside = self.volume_values() 
    99946 File
    99947 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99948 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    99949 return self.offset_values(v, n, tf) 
    99950 File
    99951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99952 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    99953 values, outside = self.vertex_values(v, xf) 
    99954 File
    99955 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99956 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    99957 out_of_bounds_list = True) 
    99958 File
    99959 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99960 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    99961 subregion, step) 
    99962 File
    99963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99964 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    99965 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    99966 File
    99967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99968 packages/chimerax/map/volume.py", line 1243, in
    99969 matrix_indices_to_xyz_transform 
    99970 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    99971 File
    99972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99973 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    99974 r = self.subregion(step, subregion) 
    99975 File
    99976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99977 packages/chimerax/map/volume.py", line 1558, in subregion 
    99978 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99979 AttributeError: 'NoneType' object has no attribute 'size' 
    99980  
    99981 AttributeError: 'NoneType' object has no attribute 'size' 
    99982  
    99983 File
    99984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99985 packages/chimerax/map/volume.py", line 1558, in subregion 
    99986 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    99987  
    99988 See log for complete Python traceback. 
    99989  
    99990 Traceback (most recent call last): 
    99991 File
    99992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99993 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    99994 drew = self.draw_new_frame() 
    99995 File
    99996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    99997 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    99998 surface.update_clip_caps(view) 
    99999 File
    100000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100001 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100002 subdivision = settings.clipping_cap_subdivision) 
    100003 File
    100004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100005 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100006 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100007 File
    100008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100009 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100010 cm.set_geometry(varray, narray, tarray) 
    100011 File
    100012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100013 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100014 arv() 
    100015 File
    100016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100017 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100018 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100019 File
    100020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100021 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100022 s.vertex_colors = self.vertex_colors(report_stats) 
    100023 File
    100024 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100025 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100026 values, outside = self.volume_values() 
    100027 File
    100028 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100029 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100030 return self.offset_values(v, n, tf) 
    100031 File
    100032 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100033 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100034 values, outside = self.vertex_values(v, xf) 
    100035 File
    100036 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100037 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100038 out_of_bounds_list = True) 
    100039 File
    100040 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100041 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100042 subregion, step) 
    100043 File
    100044 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100045 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100046 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100047 File
    100048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100049 packages/chimerax/map/volume.py", line 1243, in
    100050 matrix_indices_to_xyz_transform 
    100051 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100052 File
    100053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100054 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100055 r = self.subregion(step, subregion) 
    100056 File
    100057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100058 packages/chimerax/map/volume.py", line 1558, in subregion 
    100059 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100060 AttributeError: 'NoneType' object has no attribute 'size' 
    100061  
    100062 AttributeError: 'NoneType' object has no attribute 'size' 
    100063  
    100064 File
    100065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100066 packages/chimerax/map/volume.py", line 1558, in subregion 
    100067 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100068  
    100069 See log for complete Python traceback. 
    100070  
    100071 Traceback (most recent call last): 
    100072 File
    100073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100074 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100075 drew = self.draw_new_frame() 
    100076 File
    100077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100078 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100079 surface.update_clip_caps(view) 
    100080 File
    100081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100082 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100083 subdivision = settings.clipping_cap_subdivision) 
    100084 File
    100085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100086 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100087 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100088 File
    100089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100090 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100091 cm.set_geometry(varray, narray, tarray) 
    100092 File
    100093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100094 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100095 arv() 
    100096 File
    100097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100098 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100099 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100100 File
    100101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100102 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100103 s.vertex_colors = self.vertex_colors(report_stats) 
    100104 File
    100105 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100106 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100107 values, outside = self.volume_values() 
    100108 File
    100109 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100110 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100111 return self.offset_values(v, n, tf) 
    100112 File
    100113 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100114 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100115 values, outside = self.vertex_values(v, xf) 
    100116 File
    100117 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100118 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100119 out_of_bounds_list = True) 
    100120 File
    100121 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100122 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100123 subregion, step) 
    100124 File
    100125 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100126 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100127 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100128 File
    100129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100130 packages/chimerax/map/volume.py", line 1243, in
    100131 matrix_indices_to_xyz_transform 
    100132 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100133 File
    100134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100135 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100136 r = self.subregion(step, subregion) 
    100137 File
    100138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100139 packages/chimerax/map/volume.py", line 1558, in subregion 
    100140 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100141 AttributeError: 'NoneType' object has no attribute 'size' 
    100142  
    100143 AttributeError: 'NoneType' object has no attribute 'size' 
    100144  
    100145 File
    100146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100147 packages/chimerax/map/volume.py", line 1558, in subregion 
    100148 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100149  
    100150 See log for complete Python traceback. 
    100151  
    100152 Traceback (most recent call last): 
    100153 File
    100154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100155 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100156 drew = self.draw_new_frame() 
    100157 File
    100158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100159 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100160 surface.update_clip_caps(view) 
    100161 File
    100162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100163 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100164 subdivision = settings.clipping_cap_subdivision) 
    100165 File
    100166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100167 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100168 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100169 File
    100170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100171 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100172 cm.set_geometry(varray, narray, tarray) 
    100173 File
    100174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100175 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100176 arv() 
    100177 File
    100178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100179 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100180 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100181 File
    100182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100183 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100184 s.vertex_colors = self.vertex_colors(report_stats) 
    100185 File
    100186 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100187 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100188 values, outside = self.volume_values() 
    100189 File
    100190 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100191 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100192 return self.offset_values(v, n, tf) 
    100193 File
    100194 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100195 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100196 values, outside = self.vertex_values(v, xf) 
    100197 File
    100198 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100199 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100200 out_of_bounds_list = True) 
    100201 File
    100202 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100203 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100204 subregion, step) 
    100205 File
    100206 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100207 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100208 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100209 File
    100210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100211 packages/chimerax/map/volume.py", line 1243, in
    100212 matrix_indices_to_xyz_transform 
    100213 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100214 File
    100215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100216 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100217 r = self.subregion(step, subregion) 
    100218 File
    100219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100220 packages/chimerax/map/volume.py", line 1558, in subregion 
    100221 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100222 AttributeError: 'NoneType' object has no attribute 'size' 
    100223  
    100224 AttributeError: 'NoneType' object has no attribute 'size' 
    100225  
    100226 File
    100227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100228 packages/chimerax/map/volume.py", line 1558, in subregion 
    100229 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100230  
    100231 See log for complete Python traceback. 
    100232  
    100233 Traceback (most recent call last): 
    100234 File
    100235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100236 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100237 drew = self.draw_new_frame() 
    100238 File
    100239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100240 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100241 surface.update_clip_caps(view) 
    100242 File
    100243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100244 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100245 subdivision = settings.clipping_cap_subdivision) 
    100246 File
    100247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100248 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100249 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100250 File
    100251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100252 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100253 cm.set_geometry(varray, narray, tarray) 
    100254 File
    100255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100256 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100257 arv() 
    100258 File
    100259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100260 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100261 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100262 File
    100263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100264 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100265 s.vertex_colors = self.vertex_colors(report_stats) 
    100266 File
    100267 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100268 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100269 values, outside = self.volume_values() 
    100270 File
    100271 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100272 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100273 return self.offset_values(v, n, tf) 
    100274 File
    100275 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100276 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100277 values, outside = self.vertex_values(v, xf) 
    100278 File
    100279 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100280 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100281 out_of_bounds_list = True) 
    100282 File
    100283 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100284 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100285 subregion, step) 
    100286 File
    100287 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100288 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100289 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100290 File
    100291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100292 packages/chimerax/map/volume.py", line 1243, in
    100293 matrix_indices_to_xyz_transform 
    100294 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100295 File
    100296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100297 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100298 r = self.subregion(step, subregion) 
    100299 File
    100300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100301 packages/chimerax/map/volume.py", line 1558, in subregion 
    100302 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100303 AttributeError: 'NoneType' object has no attribute 'size' 
    100304  
    100305 AttributeError: 'NoneType' object has no attribute 'size' 
    100306  
    100307 File
    100308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100309 packages/chimerax/map/volume.py", line 1558, in subregion 
    100310 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100311  
    100312 See log for complete Python traceback. 
    100313  
    100314 Traceback (most recent call last): 
    100315 File
    100316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100317 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100318 drew = self.draw_new_frame() 
    100319 File
    100320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100321 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100322 surface.update_clip_caps(view) 
    100323 File
    100324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100325 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100326 subdivision = settings.clipping_cap_subdivision) 
    100327 File
    100328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100329 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100330 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100331 File
    100332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100333 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100334 cm.set_geometry(varray, narray, tarray) 
    100335 File
    100336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100337 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100338 arv() 
    100339 File
    100340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100341 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100342 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100343 File
    100344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100345 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100346 s.vertex_colors = self.vertex_colors(report_stats) 
    100347 File
    100348 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100349 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100350 values, outside = self.volume_values() 
    100351 File
    100352 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100353 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100354 return self.offset_values(v, n, tf) 
    100355 File
    100356 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100357 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100358 values, outside = self.vertex_values(v, xf) 
    100359 File
    100360 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100361 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100362 out_of_bounds_list = True) 
    100363 File
    100364 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100365 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100366 subregion, step) 
    100367 File
    100368 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100369 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100370 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100371 File
    100372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100373 packages/chimerax/map/volume.py", line 1243, in
    100374 matrix_indices_to_xyz_transform 
    100375 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100376 File
    100377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100378 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100379 r = self.subregion(step, subregion) 
    100380 File
    100381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100382 packages/chimerax/map/volume.py", line 1558, in subregion 
    100383 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100384 AttributeError: 'NoneType' object has no attribute 'size' 
    100385  
    100386 AttributeError: 'NoneType' object has no attribute 'size' 
    100387  
    100388 File
    100389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100390 packages/chimerax/map/volume.py", line 1558, in subregion 
    100391 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100392  
    100393 See log for complete Python traceback. 
    100394  
    100395 Traceback (most recent call last): 
    100396 File
    100397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100398 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100399 drew = self.draw_new_frame() 
    100400 File
    100401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100402 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100403 surface.update_clip_caps(view) 
    100404 File
    100405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100406 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100407 subdivision = settings.clipping_cap_subdivision) 
    100408 File
    100409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100410 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100411 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100412 File
    100413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100414 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100415 cm.set_geometry(varray, narray, tarray) 
    100416 File
    100417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100418 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100419 arv() 
    100420 File
    100421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100422 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100423 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100424 File
    100425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100426 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100427 s.vertex_colors = self.vertex_colors(report_stats) 
    100428 File
    100429 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100430 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100431 values, outside = self.volume_values() 
    100432 File
    100433 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100434 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100435 return self.offset_values(v, n, tf) 
    100436 File
    100437 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100438 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100439 values, outside = self.vertex_values(v, xf) 
    100440 File
    100441 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100442 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100443 out_of_bounds_list = True) 
    100444 File
    100445 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100446 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100447 subregion, step) 
    100448 File
    100449 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100450 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100451 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100452 File
    100453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100454 packages/chimerax/map/volume.py", line 1243, in
    100455 matrix_indices_to_xyz_transform 
    100456 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100457 File
    100458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100459 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100460 r = self.subregion(step, subregion) 
    100461 File
    100462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100463 packages/chimerax/map/volume.py", line 1558, in subregion 
    100464 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100465 AttributeError: 'NoneType' object has no attribute 'size' 
    100466  
    100467 AttributeError: 'NoneType' object has no attribute 'size' 
    100468  
    100469 File
    100470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100471 packages/chimerax/map/volume.py", line 1558, in subregion 
    100472 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100473  
    100474 See log for complete Python traceback. 
    100475  
    100476 Traceback (most recent call last): 
    100477 File
    100478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100479 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100480 drew = self.draw_new_frame() 
    100481 File
    100482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100483 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100484 surface.update_clip_caps(view) 
    100485 File
    100486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100487 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100488 subdivision = settings.clipping_cap_subdivision) 
    100489 File
    100490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100491 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100492 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100493 File
    100494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100495 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100496 cm.set_geometry(varray, narray, tarray) 
    100497 File
    100498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100499 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100500 arv() 
    100501 File
    100502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100503 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100504 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100505 File
    100506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100507 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100508 s.vertex_colors = self.vertex_colors(report_stats) 
    100509 File
    100510 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100511 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100512 values, outside = self.volume_values() 
    100513 File
    100514 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100515 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100516 return self.offset_values(v, n, tf) 
    100517 File
    100518 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100519 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100520 values, outside = self.vertex_values(v, xf) 
    100521 File
    100522 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100523 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100524 out_of_bounds_list = True) 
    100525 File
    100526 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100527 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100528 subregion, step) 
    100529 File
    100530 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100531 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100532 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100533 File
    100534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100535 packages/chimerax/map/volume.py", line 1243, in
    100536 matrix_indices_to_xyz_transform 
    100537 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100538 File
    100539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100540 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100541 r = self.subregion(step, subregion) 
    100542 File
    100543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100544 packages/chimerax/map/volume.py", line 1558, in subregion 
    100545 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100546 AttributeError: 'NoneType' object has no attribute 'size' 
    100547  
    100548 AttributeError: 'NoneType' object has no attribute 'size' 
    100549  
    100550 File
    100551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100552 packages/chimerax/map/volume.py", line 1558, in subregion 
    100553 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100554  
    100555 See log for complete Python traceback. 
    100556  
    100557 Traceback (most recent call last): 
    100558 File
    100559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100560 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100561 drew = self.draw_new_frame() 
    100562 File
    100563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100564 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100565 surface.update_clip_caps(view) 
    100566 File
    100567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100568 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100569 subdivision = settings.clipping_cap_subdivision) 
    100570 File
    100571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100572 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100573 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100574 File
    100575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100576 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100577 cm.set_geometry(varray, narray, tarray) 
    100578 File
    100579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100580 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100581 arv() 
    100582 File
    100583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100584 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100585 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100586 File
    100587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100588 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100589 s.vertex_colors = self.vertex_colors(report_stats) 
    100590 File
    100591 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100592 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100593 values, outside = self.volume_values() 
    100594 File
    100595 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100596 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100597 return self.offset_values(v, n, tf) 
    100598 File
    100599 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100600 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100601 values, outside = self.vertex_values(v, xf) 
    100602 File
    100603 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100604 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100605 out_of_bounds_list = True) 
    100606 File
    100607 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100608 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100609 subregion, step) 
    100610 File
    100611 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100612 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100613 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100614 File
    100615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100616 packages/chimerax/map/volume.py", line 1243, in
    100617 matrix_indices_to_xyz_transform 
    100618 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100619 File
    100620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100621 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100622 r = self.subregion(step, subregion) 
    100623 File
    100624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100625 packages/chimerax/map/volume.py", line 1558, in subregion 
    100626 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100627 AttributeError: 'NoneType' object has no attribute 'size' 
    100628  
    100629 AttributeError: 'NoneType' object has no attribute 'size' 
    100630  
    100631 File
    100632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100633 packages/chimerax/map/volume.py", line 1558, in subregion 
    100634 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100635  
    100636 See log for complete Python traceback. 
    100637  
    100638 Traceback (most recent call last): 
    100639 File
    100640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100641 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100642 drew = self.draw_new_frame() 
    100643 File
    100644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100645 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100646 surface.update_clip_caps(view) 
    100647 File
    100648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100649 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100650 subdivision = settings.clipping_cap_subdivision) 
    100651 File
    100652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100653 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100654 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100655 File
    100656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100657 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100658 cm.set_geometry(varray, narray, tarray) 
    100659 File
    100660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100661 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100662 arv() 
    100663 File
    100664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100665 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100666 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100667 File
    100668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100669 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100670 s.vertex_colors = self.vertex_colors(report_stats) 
    100671 File
    100672 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100673 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100674 values, outside = self.volume_values() 
    100675 File
    100676 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100677 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100678 return self.offset_values(v, n, tf) 
    100679 File
    100680 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100681 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100682 values, outside = self.vertex_values(v, xf) 
    100683 File
    100684 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100685 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100686 out_of_bounds_list = True) 
    100687 File
    100688 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100689 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100690 subregion, step) 
    100691 File
    100692 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100693 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100694 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100695 File
    100696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100697 packages/chimerax/map/volume.py", line 1243, in
    100698 matrix_indices_to_xyz_transform 
    100699 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100700 File
    100701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100702 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100703 r = self.subregion(step, subregion) 
    100704 File
    100705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100706 packages/chimerax/map/volume.py", line 1558, in subregion 
    100707 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100708 AttributeError: 'NoneType' object has no attribute 'size' 
    100709  
    100710 AttributeError: 'NoneType' object has no attribute 'size' 
    100711  
    100712 File
    100713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100714 packages/chimerax/map/volume.py", line 1558, in subregion 
    100715 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100716  
    100717 See log for complete Python traceback. 
    100718  
    100719 Traceback (most recent call last): 
    100720 File
    100721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100722 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100723 drew = self.draw_new_frame() 
    100724 File
    100725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100726 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100727 surface.update_clip_caps(view) 
    100728 File
    100729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100730 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100731 subdivision = settings.clipping_cap_subdivision) 
    100732 File
    100733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100734 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100735 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100736 File
    100737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100738 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100739 cm.set_geometry(varray, narray, tarray) 
    100740 File
    100741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100742 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100743 arv() 
    100744 File
    100745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100746 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100747 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100748 File
    100749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100750 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100751 s.vertex_colors = self.vertex_colors(report_stats) 
    100752 File
    100753 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100754 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100755 values, outside = self.volume_values() 
    100756 File
    100757 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100758 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100759 return self.offset_values(v, n, tf) 
    100760 File
    100761 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100762 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100763 values, outside = self.vertex_values(v, xf) 
    100764 File
    100765 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100766 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100767 out_of_bounds_list = True) 
    100768 File
    100769 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100770 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100771 subregion, step) 
    100772 File
    100773 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100774 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100775 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100776 File
    100777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100778 packages/chimerax/map/volume.py", line 1243, in
    100779 matrix_indices_to_xyz_transform 
    100780 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100781 File
    100782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100783 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100784 r = self.subregion(step, subregion) 
    100785 File
    100786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100787 packages/chimerax/map/volume.py", line 1558, in subregion 
    100788 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100789 AttributeError: 'NoneType' object has no attribute 'size' 
    100790  
    100791 AttributeError: 'NoneType' object has no attribute 'size' 
    100792  
    100793 File
    100794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100795 packages/chimerax/map/volume.py", line 1558, in subregion 
    100796 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100797  
    100798 See log for complete Python traceback. 
    100799  
    100800 Traceback (most recent call last): 
    100801 File
    100802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100803 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100804 drew = self.draw_new_frame() 
    100805 File
    100806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100807 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100808 surface.update_clip_caps(view) 
    100809 File
    100810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100811 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100812 subdivision = settings.clipping_cap_subdivision) 
    100813 File
    100814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100815 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100816 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100817 File
    100818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100819 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100820 cm.set_geometry(varray, narray, tarray) 
    100821 File
    100822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100823 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100824 arv() 
    100825 File
    100826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100827 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100828 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100829 File
    100830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100831 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100832 s.vertex_colors = self.vertex_colors(report_stats) 
    100833 File
    100834 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100835 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100836 values, outside = self.volume_values() 
    100837 File
    100838 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100839 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100840 return self.offset_values(v, n, tf) 
    100841 File
    100842 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100843 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100844 values, outside = self.vertex_values(v, xf) 
    100845 File
    100846 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100847 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100848 out_of_bounds_list = True) 
    100849 File
    100850 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100851 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100852 subregion, step) 
    100853 File
    100854 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100855 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100856 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100857 File
    100858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100859 packages/chimerax/map/volume.py", line 1243, in
    100860 matrix_indices_to_xyz_transform 
    100861 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100862 File
    100863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100864 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100865 r = self.subregion(step, subregion) 
    100866 File
    100867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100868 packages/chimerax/map/volume.py", line 1558, in subregion 
    100869 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100870 AttributeError: 'NoneType' object has no attribute 'size' 
    100871  
    100872 AttributeError: 'NoneType' object has no attribute 'size' 
    100873  
    100874 File
    100875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100876 packages/chimerax/map/volume.py", line 1558, in subregion 
    100877 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100878  
    100879 See log for complete Python traceback. 
    100880  
    100881 Traceback (most recent call last): 
    100882 File
    100883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100884 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100885 drew = self.draw_new_frame() 
    100886 File
    100887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100888 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100889 surface.update_clip_caps(view) 
    100890 File
    100891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100892 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100893 subdivision = settings.clipping_cap_subdivision) 
    100894 File
    100895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100896 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100897 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100898 File
    100899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100900 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100901 cm.set_geometry(varray, narray, tarray) 
    100902 File
    100903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100904 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100905 arv() 
    100906 File
    100907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100908 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100909 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100910 File
    100911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100912 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100913 s.vertex_colors = self.vertex_colors(report_stats) 
    100914 File
    100915 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100916 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100917 values, outside = self.volume_values() 
    100918 File
    100919 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100920 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    100921 return self.offset_values(v, n, tf) 
    100922 File
    100923 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100924 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    100925 values, outside = self.vertex_values(v, xf) 
    100926 File
    100927 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100928 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    100929 out_of_bounds_list = True) 
    100930 File
    100931 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100932 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    100933 subregion, step) 
    100934 File
    100935 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100936 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    100937 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    100938 File
    100939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100940 packages/chimerax/map/volume.py", line 1243, in
    100941 matrix_indices_to_xyz_transform 
    100942 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    100943 File
    100944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100945 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    100946 r = self.subregion(step, subregion) 
    100947 File
    100948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100949 packages/chimerax/map/volume.py", line 1558, in subregion 
    100950 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100951 AttributeError: 'NoneType' object has no attribute 'size' 
    100952  
    100953 AttributeError: 'NoneType' object has no attribute 'size' 
    100954  
    100955 File
    100956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100957 packages/chimerax/map/volume.py", line 1558, in subregion 
    100958 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    100959  
    100960 See log for complete Python traceback. 
    100961  
    100962 Traceback (most recent call last): 
    100963 File
    100964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100965 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    100966 drew = self.draw_new_frame() 
    100967 File
    100968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100969 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    100970 surface.update_clip_caps(view) 
    100971 File
    100972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100973 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    100974 subdivision = settings.clipping_cap_subdivision) 
    100975 File
    100976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100977 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    100978 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    100979 File
    100980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100981 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    100982 cm.set_geometry(varray, narray, tarray) 
    100983 File
    100984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100985 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    100986 arv() 
    100987 File
    100988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100989 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    100990 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    100991 File
    100992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100993 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    100994 s.vertex_colors = self.vertex_colors(report_stats) 
    100995 File
    100996 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    100997 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    100998 values, outside = self.volume_values() 
    100999 File
    101000 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101001 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101002 return self.offset_values(v, n, tf) 
    101003 File
    101004 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101005 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101006 values, outside = self.vertex_values(v, xf) 
    101007 File
    101008 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101009 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101010 out_of_bounds_list = True) 
    101011 File
    101012 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101013 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101014 subregion, step) 
    101015 File
    101016 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101017 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101018 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101019 File
    101020 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101021 packages/chimerax/map/volume.py", line 1243, in
    101022 matrix_indices_to_xyz_transform 
    101023 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101024 File
    101025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101026 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101027 r = self.subregion(step, subregion) 
    101028 File
    101029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101030 packages/chimerax/map/volume.py", line 1558, in subregion 
    101031 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101032 AttributeError: 'NoneType' object has no attribute 'size' 
    101033  
    101034 AttributeError: 'NoneType' object has no attribute 'size' 
    101035  
    101036 File
    101037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101038 packages/chimerax/map/volume.py", line 1558, in subregion 
    101039 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101040  
    101041 See log for complete Python traceback. 
    101042  
    101043 Traceback (most recent call last): 
    101044 File
    101045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101046 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101047 drew = self.draw_new_frame() 
    101048 File
    101049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101050 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101051 surface.update_clip_caps(view) 
    101052 File
    101053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101054 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101055 subdivision = settings.clipping_cap_subdivision) 
    101056 File
    101057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101058 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101059 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101060 File
    101061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101062 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101063 cm.set_geometry(varray, narray, tarray) 
    101064 File
    101065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101066 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101067 arv() 
    101068 File
    101069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101070 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101071 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101072 File
    101073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101074 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101075 s.vertex_colors = self.vertex_colors(report_stats) 
    101076 File
    101077 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101078 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101079 values, outside = self.volume_values() 
    101080 File
    101081 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101082 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101083 return self.offset_values(v, n, tf) 
    101084 File
    101085 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101086 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101087 values, outside = self.vertex_values(v, xf) 
    101088 File
    101089 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101090 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101091 out_of_bounds_list = True) 
    101092 File
    101093 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101094 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101095 subregion, step) 
    101096 File
    101097 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101098 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101099 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101100 File
    101101 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101102 packages/chimerax/map/volume.py", line 1243, in
    101103 matrix_indices_to_xyz_transform 
    101104 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101105 File
    101106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101107 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101108 r = self.subregion(step, subregion) 
    101109 File
    101110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101111 packages/chimerax/map/volume.py", line 1558, in subregion 
    101112 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101113 AttributeError: 'NoneType' object has no attribute 'size' 
    101114  
    101115 AttributeError: 'NoneType' object has no attribute 'size' 
    101116  
    101117 File
    101118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101119 packages/chimerax/map/volume.py", line 1558, in subregion 
    101120 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101121  
    101122 See log for complete Python traceback. 
    101123  
    101124 Traceback (most recent call last): 
    101125 File
    101126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101127 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101128 drew = self.draw_new_frame() 
    101129 File
    101130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101131 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101132 surface.update_clip_caps(view) 
    101133 File
    101134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101135 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101136 subdivision = settings.clipping_cap_subdivision) 
    101137 File
    101138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101139 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101140 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101141 File
    101142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101143 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101144 cm.set_geometry(varray, narray, tarray) 
    101145 File
    101146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101147 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101148 arv() 
    101149 File
    101150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101151 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101152 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101153 File
    101154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101155 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101156 s.vertex_colors = self.vertex_colors(report_stats) 
    101157 File
    101158 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101159 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101160 values, outside = self.volume_values() 
    101161 File
    101162 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101163 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101164 return self.offset_values(v, n, tf) 
    101165 File
    101166 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101167 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101168 values, outside = self.vertex_values(v, xf) 
    101169 File
    101170 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101171 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101172 out_of_bounds_list = True) 
    101173 File
    101174 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101175 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101176 subregion, step) 
    101177 File
    101178 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101179 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101180 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101181 File
    101182 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101183 packages/chimerax/map/volume.py", line 1243, in
    101184 matrix_indices_to_xyz_transform 
    101185 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101186 File
    101187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101188 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101189 r = self.subregion(step, subregion) 
    101190 File
    101191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101192 packages/chimerax/map/volume.py", line 1558, in subregion 
    101193 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101194 AttributeError: 'NoneType' object has no attribute 'size' 
    101195  
    101196 AttributeError: 'NoneType' object has no attribute 'size' 
    101197  
    101198 File
    101199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101200 packages/chimerax/map/volume.py", line 1558, in subregion 
    101201 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101202  
    101203 See log for complete Python traceback. 
    101204  
    101205 Traceback (most recent call last): 
    101206 File
    101207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101208 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101209 drew = self.draw_new_frame() 
    101210 File
    101211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101212 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101213 surface.update_clip_caps(view) 
    101214 File
    101215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101216 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101217 subdivision = settings.clipping_cap_subdivision) 
    101218 File
    101219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101220 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101221 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101222 File
    101223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101224 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101225 cm.set_geometry(varray, narray, tarray) 
    101226 File
    101227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101228 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101229 arv() 
    101230 File
    101231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101232 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101233 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101234 File
    101235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101236 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101237 s.vertex_colors = self.vertex_colors(report_stats) 
    101238 File
    101239 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101240 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101241 values, outside = self.volume_values() 
    101242 File
    101243 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101244 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101245 return self.offset_values(v, n, tf) 
    101246 File
    101247 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101248 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101249 values, outside = self.vertex_values(v, xf) 
    101250 File
    101251 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101252 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101253 out_of_bounds_list = True) 
    101254 File
    101255 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101256 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101257 subregion, step) 
    101258 File
    101259 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101260 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101261 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101262 File
    101263 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101264 packages/chimerax/map/volume.py", line 1243, in
    101265 matrix_indices_to_xyz_transform 
    101266 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101267 File
    101268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101269 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101270 r = self.subregion(step, subregion) 
    101271 File
    101272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101273 packages/chimerax/map/volume.py", line 1558, in subregion 
    101274 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101275 AttributeError: 'NoneType' object has no attribute 'size' 
    101276  
    101277 AttributeError: 'NoneType' object has no attribute 'size' 
    101278  
    101279 File
    101280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101281 packages/chimerax/map/volume.py", line 1558, in subregion 
    101282 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101283  
    101284 See log for complete Python traceback. 
    101285  
    101286 Traceback (most recent call last): 
    101287 File
    101288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101289 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101290 drew = self.draw_new_frame() 
    101291 File
    101292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101293 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101294 surface.update_clip_caps(view) 
    101295 File
    101296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101297 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101298 subdivision = settings.clipping_cap_subdivision) 
    101299 File
    101300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101301 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101302 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101303 File
    101304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101305 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101306 cm.set_geometry(varray, narray, tarray) 
    101307 File
    101308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101309 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101310 arv() 
    101311 File
    101312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101313 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101314 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101315 File
    101316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101317 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101318 s.vertex_colors = self.vertex_colors(report_stats) 
    101319 File
    101320 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101321 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101322 values, outside = self.volume_values() 
    101323 File
    101324 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101325 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101326 return self.offset_values(v, n, tf) 
    101327 File
    101328 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101329 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101330 values, outside = self.vertex_values(v, xf) 
    101331 File
    101332 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101333 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101334 out_of_bounds_list = True) 
    101335 File
    101336 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101337 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101338 subregion, step) 
    101339 File
    101340 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101341 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101342 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101343 File
    101344 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101345 packages/chimerax/map/volume.py", line 1243, in
    101346 matrix_indices_to_xyz_transform 
    101347 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101348 File
    101349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101350 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101351 r = self.subregion(step, subregion) 
    101352 File
    101353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101354 packages/chimerax/map/volume.py", line 1558, in subregion 
    101355 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101356 AttributeError: 'NoneType' object has no attribute 'size' 
    101357  
    101358 AttributeError: 'NoneType' object has no attribute 'size' 
    101359  
    101360 File
    101361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101362 packages/chimerax/map/volume.py", line 1558, in subregion 
    101363 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101364  
    101365 See log for complete Python traceback. 
    101366  
    101367 Traceback (most recent call last): 
    101368 File
    101369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101370 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101371 drew = self.draw_new_frame() 
    101372 File
    101373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101374 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101375 surface.update_clip_caps(view) 
    101376 File
    101377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101378 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101379 subdivision = settings.clipping_cap_subdivision) 
    101380 File
    101381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101382 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101383 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101384 File
    101385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101386 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101387 cm.set_geometry(varray, narray, tarray) 
    101388 File
    101389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101390 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101391 arv() 
    101392 File
    101393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101394 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101395 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101396 File
    101397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101398 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101399 s.vertex_colors = self.vertex_colors(report_stats) 
    101400 File
    101401 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101402 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101403 values, outside = self.volume_values() 
    101404 File
    101405 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101406 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101407 return self.offset_values(v, n, tf) 
    101408 File
    101409 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101410 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101411 values, outside = self.vertex_values(v, xf) 
    101412 File
    101413 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101414 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101415 out_of_bounds_list = True) 
    101416 File
    101417 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101418 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101419 subregion, step) 
    101420 File
    101421 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101422 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101423 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101424 File
    101425 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101426 packages/chimerax/map/volume.py", line 1243, in
    101427 matrix_indices_to_xyz_transform 
    101428 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101429 File
    101430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101431 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101432 r = self.subregion(step, subregion) 
    101433 File
    101434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101435 packages/chimerax/map/volume.py", line 1558, in subregion 
    101436 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101437 AttributeError: 'NoneType' object has no attribute 'size' 
    101438  
    101439 AttributeError: 'NoneType' object has no attribute 'size' 
    101440  
    101441 File
    101442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101443 packages/chimerax/map/volume.py", line 1558, in subregion 
    101444 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101445  
    101446 See log for complete Python traceback. 
    101447  
    101448 Traceback (most recent call last): 
    101449 File
    101450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101451 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101452 drew = self.draw_new_frame() 
    101453 File
    101454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101455 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101456 surface.update_clip_caps(view) 
    101457 File
    101458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101459 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101460 subdivision = settings.clipping_cap_subdivision) 
    101461 File
    101462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101463 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101464 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101465 File
    101466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101467 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101468 cm.set_geometry(varray, narray, tarray) 
    101469 File
    101470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101471 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101472 arv() 
    101473 File
    101474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101475 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101476 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101477 File
    101478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101479 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101480 s.vertex_colors = self.vertex_colors(report_stats) 
    101481 File
    101482 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101483 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101484 values, outside = self.volume_values() 
    101485 File
    101486 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101487 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101488 return self.offset_values(v, n, tf) 
    101489 File
    101490 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101491 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101492 values, outside = self.vertex_values(v, xf) 
    101493 File
    101494 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101495 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101496 out_of_bounds_list = True) 
    101497 File
    101498 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101499 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101500 subregion, step) 
    101501 File
    101502 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101503 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101504 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101505 File
    101506 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101507 packages/chimerax/map/volume.py", line 1243, in
    101508 matrix_indices_to_xyz_transform 
    101509 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101510 File
    101511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101512 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101513 r = self.subregion(step, subregion) 
    101514 File
    101515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101516 packages/chimerax/map/volume.py", line 1558, in subregion 
    101517 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101518 AttributeError: 'NoneType' object has no attribute 'size' 
    101519  
    101520 AttributeError: 'NoneType' object has no attribute 'size' 
    101521  
    101522 File
    101523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101524 packages/chimerax/map/volume.py", line 1558, in subregion 
    101525 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101526  
    101527 See log for complete Python traceback. 
    101528  
    101529 Traceback (most recent call last): 
    101530 File
    101531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101532 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101533 drew = self.draw_new_frame() 
    101534 File
    101535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101536 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101537 surface.update_clip_caps(view) 
    101538 File
    101539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101540 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101541 subdivision = settings.clipping_cap_subdivision) 
    101542 File
    101543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101544 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101545 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101546 File
    101547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101548 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101549 cm.set_geometry(varray, narray, tarray) 
    101550 File
    101551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101552 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101553 arv() 
    101554 File
    101555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101556 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101557 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101558 File
    101559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101560 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101561 s.vertex_colors = self.vertex_colors(report_stats) 
    101562 File
    101563 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101564 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101565 values, outside = self.volume_values() 
    101566 File
    101567 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101568 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101569 return self.offset_values(v, n, tf) 
    101570 File
    101571 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101572 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101573 values, outside = self.vertex_values(v, xf) 
    101574 File
    101575 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101576 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101577 out_of_bounds_list = True) 
    101578 File
    101579 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101580 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101581 subregion, step) 
    101582 File
    101583 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101584 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101585 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101586 File
    101587 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101588 packages/chimerax/map/volume.py", line 1243, in
    101589 matrix_indices_to_xyz_transform 
    101590 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101591 File
    101592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101593 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101594 r = self.subregion(step, subregion) 
    101595 File
    101596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101597 packages/chimerax/map/volume.py", line 1558, in subregion 
    101598 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101599 AttributeError: 'NoneType' object has no attribute 'size' 
    101600  
    101601 AttributeError: 'NoneType' object has no attribute 'size' 
    101602  
    101603 File
    101604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101605 packages/chimerax/map/volume.py", line 1558, in subregion 
    101606 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101607  
    101608 See log for complete Python traceback. 
    101609  
    101610 Traceback (most recent call last): 
    101611 File
    101612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101613 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101614 drew = self.draw_new_frame() 
    101615 File
    101616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101617 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101618 surface.update_clip_caps(view) 
    101619 File
    101620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101621 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101622 subdivision = settings.clipping_cap_subdivision) 
    101623 File
    101624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101625 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101626 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101627 File
    101628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101629 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101630 cm.set_geometry(varray, narray, tarray) 
    101631 File
    101632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101633 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101634 arv() 
    101635 File
    101636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101637 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101638 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101639 File
    101640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101641 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101642 s.vertex_colors = self.vertex_colors(report_stats) 
    101643 File
    101644 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101645 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101646 values, outside = self.volume_values() 
    101647 File
    101648 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101649 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101650 return self.offset_values(v, n, tf) 
    101651 File
    101652 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101653 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101654 values, outside = self.vertex_values(v, xf) 
    101655 File
    101656 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101657 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101658 out_of_bounds_list = True) 
    101659 File
    101660 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101661 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101662 subregion, step) 
    101663 File
    101664 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101665 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101666 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101667 File
    101668 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101669 packages/chimerax/map/volume.py", line 1243, in
    101670 matrix_indices_to_xyz_transform 
    101671 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101672 File
    101673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101674 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101675 r = self.subregion(step, subregion) 
    101676 File
    101677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101678 packages/chimerax/map/volume.py", line 1558, in subregion 
    101679 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101680 AttributeError: 'NoneType' object has no attribute 'size' 
    101681  
    101682 AttributeError: 'NoneType' object has no attribute 'size' 
    101683  
    101684 File
    101685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101686 packages/chimerax/map/volume.py", line 1558, in subregion 
    101687 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101688  
    101689 See log for complete Python traceback. 
    101690  
    101691 Traceback (most recent call last): 
    101692 File
    101693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101694 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101695 drew = self.draw_new_frame() 
    101696 File
    101697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101698 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101699 surface.update_clip_caps(view) 
    101700 File
    101701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101702 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101703 subdivision = settings.clipping_cap_subdivision) 
    101704 File
    101705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101706 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101707 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101708 File
    101709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101710 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101711 cm.set_geometry(varray, narray, tarray) 
    101712 File
    101713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101714 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101715 arv() 
    101716 File
    101717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101718 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101719 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101720 File
    101721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101722 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101723 s.vertex_colors = self.vertex_colors(report_stats) 
    101724 File
    101725 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101726 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101727 values, outside = self.volume_values() 
    101728 File
    101729 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101730 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101731 return self.offset_values(v, n, tf) 
    101732 File
    101733 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101734 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101735 values, outside = self.vertex_values(v, xf) 
    101736 File
    101737 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101738 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101739 out_of_bounds_list = True) 
    101740 File
    101741 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101742 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101743 subregion, step) 
    101744 File
    101745 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101746 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101747 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101748 File
    101749 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101750 packages/chimerax/map/volume.py", line 1243, in
    101751 matrix_indices_to_xyz_transform 
    101752 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101753 File
    101754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101755 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101756 r = self.subregion(step, subregion) 
    101757 File
    101758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101759 packages/chimerax/map/volume.py", line 1558, in subregion 
    101760 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101761 AttributeError: 'NoneType' object has no attribute 'size' 
    101762  
    101763 AttributeError: 'NoneType' object has no attribute 'size' 
    101764  
    101765 File
    101766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101767 packages/chimerax/map/volume.py", line 1558, in subregion 
    101768 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101769  
    101770 See log for complete Python traceback. 
    101771  
    101772 Traceback (most recent call last): 
    101773 File
    101774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101775 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101776 drew = self.draw_new_frame() 
    101777 File
    101778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101779 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101780 surface.update_clip_caps(view) 
    101781 File
    101782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101783 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101784 subdivision = settings.clipping_cap_subdivision) 
    101785 File
    101786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101787 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101788 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101789 File
    101790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101791 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101792 cm.set_geometry(varray, narray, tarray) 
    101793 File
    101794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101795 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101796 arv() 
    101797 File
    101798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101799 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101800 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101801 File
    101802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101803 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101804 s.vertex_colors = self.vertex_colors(report_stats) 
    101805 File
    101806 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101807 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101808 values, outside = self.volume_values() 
    101809 File
    101810 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101811 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101812 return self.offset_values(v, n, tf) 
    101813 File
    101814 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101815 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101816 values, outside = self.vertex_values(v, xf) 
    101817 File
    101818 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101819 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101820 out_of_bounds_list = True) 
    101821 File
    101822 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101823 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101824 subregion, step) 
    101825 File
    101826 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101827 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101828 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101829 File
    101830 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101831 packages/chimerax/map/volume.py", line 1243, in
    101832 matrix_indices_to_xyz_transform 
    101833 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101834 File
    101835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101836 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101837 r = self.subregion(step, subregion) 
    101838 File
    101839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101840 packages/chimerax/map/volume.py", line 1558, in subregion 
    101841 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101842 AttributeError: 'NoneType' object has no attribute 'size' 
    101843  
    101844 AttributeError: 'NoneType' object has no attribute 'size' 
    101845  
    101846 File
    101847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101848 packages/chimerax/map/volume.py", line 1558, in subregion 
    101849 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101850  
    101851 See log for complete Python traceback. 
    101852  
    101853 Traceback (most recent call last): 
    101854 File
    101855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101856 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101857 drew = self.draw_new_frame() 
    101858 File
    101859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101860 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101861 surface.update_clip_caps(view) 
    101862 File
    101863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101864 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101865 subdivision = settings.clipping_cap_subdivision) 
    101866 File
    101867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101868 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101869 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101870 File
    101871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101872 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101873 cm.set_geometry(varray, narray, tarray) 
    101874 File
    101875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101876 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101877 arv() 
    101878 File
    101879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101880 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101881 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101882 File
    101883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101884 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101885 s.vertex_colors = self.vertex_colors(report_stats) 
    101886 File
    101887 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101888 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101889 values, outside = self.volume_values() 
    101890 File
    101891 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101892 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101893 return self.offset_values(v, n, tf) 
    101894 File
    101895 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101896 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101897 values, outside = self.vertex_values(v, xf) 
    101898 File
    101899 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101900 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101901 out_of_bounds_list = True) 
    101902 File
    101903 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101904 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101905 subregion, step) 
    101906 File
    101907 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101908 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101909 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101910 File
    101911 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101912 packages/chimerax/map/volume.py", line 1243, in
    101913 matrix_indices_to_xyz_transform 
    101914 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101915 File
    101916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101917 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101918 r = self.subregion(step, subregion) 
    101919 File
    101920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101921 packages/chimerax/map/volume.py", line 1558, in subregion 
    101922 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101923 AttributeError: 'NoneType' object has no attribute 'size' 
    101924  
    101925 AttributeError: 'NoneType' object has no attribute 'size' 
    101926  
    101927 File
    101928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101929 packages/chimerax/map/volume.py", line 1558, in subregion 
    101930 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    101931  
    101932 See log for complete Python traceback. 
    101933  
    101934 Traceback (most recent call last): 
    101935 File
    101936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101937 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    101938 drew = self.draw_new_frame() 
    101939 File
    101940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101941 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    101942 surface.update_clip_caps(view) 
    101943 File
    101944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101945 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    101946 subdivision = settings.clipping_cap_subdivision) 
    101947 File
    101948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101949 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    101950 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    101951 File
    101952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101953 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    101954 cm.set_geometry(varray, narray, tarray) 
    101955 File
    101956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101957 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    101958 arv() 
    101959 File
    101960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101961 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    101962 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    101963 File
    101964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101965 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    101966 s.vertex_colors = self.vertex_colors(report_stats) 
    101967 File
    101968 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101969 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    101970 values, outside = self.volume_values() 
    101971 File
    101972 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101973 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    101974 return self.offset_values(v, n, tf) 
    101975 File
    101976 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101977 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    101978 values, outside = self.vertex_values(v, xf) 
    101979 File
    101980 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101981 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    101982 out_of_bounds_list = True) 
    101983 File
    101984 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101985 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    101986 subregion, step) 
    101987 File
    101988 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101989 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    101990 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    101991 File
    101992 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101993 packages/chimerax/map/volume.py", line 1243, in
    101994 matrix_indices_to_xyz_transform 
    101995 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    101996 File
    101997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    101998 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    101999 r = self.subregion(step, subregion) 
    102000 File
    102001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102002 packages/chimerax/map/volume.py", line 1558, in subregion 
    102003 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102004 AttributeError: 'NoneType' object has no attribute 'size' 
    102005  
    102006 AttributeError: 'NoneType' object has no attribute 'size' 
    102007  
    102008 File
    102009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102010 packages/chimerax/map/volume.py", line 1558, in subregion 
    102011 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102012  
    102013 See log for complete Python traceback. 
    102014  
    102015 Traceback (most recent call last): 
    102016 File
    102017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102018 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102019 drew = self.draw_new_frame() 
    102020 File
    102021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102022 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102023 surface.update_clip_caps(view) 
    102024 File
    102025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102026 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102027 subdivision = settings.clipping_cap_subdivision) 
    102028 File
    102029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102030 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102031 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102032 File
    102033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102034 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102035 cm.set_geometry(varray, narray, tarray) 
    102036 File
    102037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102038 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102039 arv() 
    102040 File
    102041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102042 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102043 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102044 File
    102045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102046 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102047 s.vertex_colors = self.vertex_colors(report_stats) 
    102048 File
    102049 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102050 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102051 values, outside = self.volume_values() 
    102052 File
    102053 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102054 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102055 return self.offset_values(v, n, tf) 
    102056 File
    102057 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102058 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102059 values, outside = self.vertex_values(v, xf) 
    102060 File
    102061 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102062 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102063 out_of_bounds_list = True) 
    102064 File
    102065 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102066 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102067 subregion, step) 
    102068 File
    102069 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102070 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102071 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102072 File
    102073 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102074 packages/chimerax/map/volume.py", line 1243, in
    102075 matrix_indices_to_xyz_transform 
    102076 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102077 File
    102078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102079 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102080 r = self.subregion(step, subregion) 
    102081 File
    102082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102083 packages/chimerax/map/volume.py", line 1558, in subregion 
    102084 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102085 AttributeError: 'NoneType' object has no attribute 'size' 
    102086  
    102087 AttributeError: 'NoneType' object has no attribute 'size' 
    102088  
    102089 File
    102090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102091 packages/chimerax/map/volume.py", line 1558, in subregion 
    102092 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102093  
    102094 See log for complete Python traceback. 
    102095  
    102096 Traceback (most recent call last): 
    102097 File
    102098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102099 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102100 drew = self.draw_new_frame() 
    102101 File
    102102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102103 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102104 surface.update_clip_caps(view) 
    102105 File
    102106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102107 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102108 subdivision = settings.clipping_cap_subdivision) 
    102109 File
    102110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102111 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102112 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102113 File
    102114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102115 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102116 cm.set_geometry(varray, narray, tarray) 
    102117 File
    102118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102119 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102120 arv() 
    102121 File
    102122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102123 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102124 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102125 File
    102126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102127 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102128 s.vertex_colors = self.vertex_colors(report_stats) 
    102129 File
    102130 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102131 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102132 values, outside = self.volume_values() 
    102133 File
    102134 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102135 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102136 return self.offset_values(v, n, tf) 
    102137 File
    102138 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102139 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102140 values, outside = self.vertex_values(v, xf) 
    102141 File
    102142 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102143 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102144 out_of_bounds_list = True) 
    102145 File
    102146 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102147 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102148 subregion, step) 
    102149 File
    102150 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102151 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102152 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102153 File
    102154 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102155 packages/chimerax/map/volume.py", line 1243, in
    102156 matrix_indices_to_xyz_transform 
    102157 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102158 File
    102159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102160 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102161 r = self.subregion(step, subregion) 
    102162 File
    102163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102164 packages/chimerax/map/volume.py", line 1558, in subregion 
    102165 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102166 AttributeError: 'NoneType' object has no attribute 'size' 
    102167  
    102168 AttributeError: 'NoneType' object has no attribute 'size' 
    102169  
    102170 File
    102171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102172 packages/chimerax/map/volume.py", line 1558, in subregion 
    102173 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102174  
    102175 See log for complete Python traceback. 
    102176  
    102177 Traceback (most recent call last): 
    102178 File
    102179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102180 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102181 drew = self.draw_new_frame() 
    102182 File
    102183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102184 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102185 surface.update_clip_caps(view) 
    102186 File
    102187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102188 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102189 subdivision = settings.clipping_cap_subdivision) 
    102190 File
    102191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102192 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102193 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102194 File
    102195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102196 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102197 cm.set_geometry(varray, narray, tarray) 
    102198 File
    102199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102200 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102201 arv() 
    102202 File
    102203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102204 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102205 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102206 File
    102207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102208 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102209 s.vertex_colors = self.vertex_colors(report_stats) 
    102210 File
    102211 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102212 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102213 values, outside = self.volume_values() 
    102214 File
    102215 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102216 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102217 return self.offset_values(v, n, tf) 
    102218 File
    102219 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102220 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102221 values, outside = self.vertex_values(v, xf) 
    102222 File
    102223 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102224 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102225 out_of_bounds_list = True) 
    102226 File
    102227 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102228 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102229 subregion, step) 
    102230 File
    102231 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102232 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102233 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102234 File
    102235 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102236 packages/chimerax/map/volume.py", line 1243, in
    102237 matrix_indices_to_xyz_transform 
    102238 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102239 File
    102240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102241 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102242 r = self.subregion(step, subregion) 
    102243 File
    102244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102245 packages/chimerax/map/volume.py", line 1558, in subregion 
    102246 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102247 AttributeError: 'NoneType' object has no attribute 'size' 
    102248  
    102249 AttributeError: 'NoneType' object has no attribute 'size' 
    102250  
    102251 File
    102252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102253 packages/chimerax/map/volume.py", line 1558, in subregion 
    102254 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102255  
    102256 See log for complete Python traceback. 
    102257  
    102258 Traceback (most recent call last): 
    102259 File
    102260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102261 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102262 drew = self.draw_new_frame() 
    102263 File
    102264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102265 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102266 surface.update_clip_caps(view) 
    102267 File
    102268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102269 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102270 subdivision = settings.clipping_cap_subdivision) 
    102271 File
    102272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102273 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102274 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102275 File
    102276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102277 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102278 cm.set_geometry(varray, narray, tarray) 
    102279 File
    102280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102281 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102282 arv() 
    102283 File
    102284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102285 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102286 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102287 File
    102288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102289 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102290 s.vertex_colors = self.vertex_colors(report_stats) 
    102291 File
    102292 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102293 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102294 values, outside = self.volume_values() 
    102295 File
    102296 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102297 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102298 return self.offset_values(v, n, tf) 
    102299 File
    102300 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102301 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102302 values, outside = self.vertex_values(v, xf) 
    102303 File
    102304 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102305 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102306 out_of_bounds_list = True) 
    102307 File
    102308 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102309 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102310 subregion, step) 
    102311 File
    102312 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102313 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102314 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102315 File
    102316 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102317 packages/chimerax/map/volume.py", line 1243, in
    102318 matrix_indices_to_xyz_transform 
    102319 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102320 File
    102321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102322 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102323 r = self.subregion(step, subregion) 
    102324 File
    102325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102326 packages/chimerax/map/volume.py", line 1558, in subregion 
    102327 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102328 AttributeError: 'NoneType' object has no attribute 'size' 
    102329  
    102330 AttributeError: 'NoneType' object has no attribute 'size' 
    102331  
    102332 File
    102333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102334 packages/chimerax/map/volume.py", line 1558, in subregion 
    102335 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102336  
    102337 See log for complete Python traceback. 
    102338  
    102339 Traceback (most recent call last): 
    102340 File
    102341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102342 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102343 drew = self.draw_new_frame() 
    102344 File
    102345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102346 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102347 surface.update_clip_caps(view) 
    102348 File
    102349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102350 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102351 subdivision = settings.clipping_cap_subdivision) 
    102352 File
    102353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102354 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102355 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102356 File
    102357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102358 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102359 cm.set_geometry(varray, narray, tarray) 
    102360 File
    102361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102362 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102363 arv() 
    102364 File
    102365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102366 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102367 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102368 File
    102369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102370 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102371 s.vertex_colors = self.vertex_colors(report_stats) 
    102372 File
    102373 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102374 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102375 values, outside = self.volume_values() 
    102376 File
    102377 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102378 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102379 return self.offset_values(v, n, tf) 
    102380 File
    102381 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102382 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102383 values, outside = self.vertex_values(v, xf) 
    102384 File
    102385 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102386 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102387 out_of_bounds_list = True) 
    102388 File
    102389 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102390 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102391 subregion, step) 
    102392 File
    102393 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102394 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102395 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102396 File
    102397 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102398 packages/chimerax/map/volume.py", line 1243, in
    102399 matrix_indices_to_xyz_transform 
    102400 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102401 File
    102402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102403 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102404 r = self.subregion(step, subregion) 
    102405 File
    102406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102407 packages/chimerax/map/volume.py", line 1558, in subregion 
    102408 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102409 AttributeError: 'NoneType' object has no attribute 'size' 
    102410  
    102411 AttributeError: 'NoneType' object has no attribute 'size' 
    102412  
    102413 File
    102414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102415 packages/chimerax/map/volume.py", line 1558, in subregion 
    102416 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102417  
    102418 See log for complete Python traceback. 
    102419  
    102420 Traceback (most recent call last): 
    102421 File
    102422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102423 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102424 drew = self.draw_new_frame() 
    102425 File
    102426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102427 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102428 surface.update_clip_caps(view) 
    102429 File
    102430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102431 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102432 subdivision = settings.clipping_cap_subdivision) 
    102433 File
    102434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102435 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102436 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102437 File
    102438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102439 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102440 cm.set_geometry(varray, narray, tarray) 
    102441 File
    102442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102443 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102444 arv() 
    102445 File
    102446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102447 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102448 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102449 File
    102450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102451 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102452 s.vertex_colors = self.vertex_colors(report_stats) 
    102453 File
    102454 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102455 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102456 values, outside = self.volume_values() 
    102457 File
    102458 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102459 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102460 return self.offset_values(v, n, tf) 
    102461 File
    102462 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102463 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102464 values, outside = self.vertex_values(v, xf) 
    102465 File
    102466 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102467 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102468 out_of_bounds_list = True) 
    102469 File
    102470 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102471 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102472 subregion, step) 
    102473 File
    102474 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102475 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102476 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102477 File
    102478 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102479 packages/chimerax/map/volume.py", line 1243, in
    102480 matrix_indices_to_xyz_transform 
    102481 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102482 File
    102483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102484 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102485 r = self.subregion(step, subregion) 
    102486 File
    102487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102488 packages/chimerax/map/volume.py", line 1558, in subregion 
    102489 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102490 AttributeError: 'NoneType' object has no attribute 'size' 
    102491  
    102492 AttributeError: 'NoneType' object has no attribute 'size' 
    102493  
    102494 File
    102495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102496 packages/chimerax/map/volume.py", line 1558, in subregion 
    102497 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102498  
    102499 See log for complete Python traceback. 
    102500  
    102501 Traceback (most recent call last): 
    102502 File
    102503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102504 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102505 drew = self.draw_new_frame() 
    102506 File
    102507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102508 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102509 surface.update_clip_caps(view) 
    102510 File
    102511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102512 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102513 subdivision = settings.clipping_cap_subdivision) 
    102514 File
    102515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102516 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102517 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102518 File
    102519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102520 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102521 cm.set_geometry(varray, narray, tarray) 
    102522 File
    102523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102524 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102525 arv() 
    102526 File
    102527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102528 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102529 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102530 File
    102531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102532 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102533 s.vertex_colors = self.vertex_colors(report_stats) 
    102534 File
    102535 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102536 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102537 values, outside = self.volume_values() 
    102538 File
    102539 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102540 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102541 return self.offset_values(v, n, tf) 
    102542 File
    102543 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102544 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102545 values, outside = self.vertex_values(v, xf) 
    102546 File
    102547 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102548 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102549 out_of_bounds_list = True) 
    102550 File
    102551 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102552 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102553 subregion, step) 
    102554 File
    102555 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102556 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102557 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102558 File
    102559 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102560 packages/chimerax/map/volume.py", line 1243, in
    102561 matrix_indices_to_xyz_transform 
    102562 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102563 File
    102564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102565 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102566 r = self.subregion(step, subregion) 
    102567 File
    102568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102569 packages/chimerax/map/volume.py", line 1558, in subregion 
    102570 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102571 AttributeError: 'NoneType' object has no attribute 'size' 
    102572  
    102573 AttributeError: 'NoneType' object has no attribute 'size' 
    102574  
    102575 File
    102576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102577 packages/chimerax/map/volume.py", line 1558, in subregion 
    102578 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102579  
    102580 See log for complete Python traceback. 
    102581  
    102582 Traceback (most recent call last): 
    102583 File
    102584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102585 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102586 drew = self.draw_new_frame() 
    102587 File
    102588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102589 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102590 surface.update_clip_caps(view) 
    102591 File
    102592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102593 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102594 subdivision = settings.clipping_cap_subdivision) 
    102595 File
    102596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102597 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102598 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102599 File
    102600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102601 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102602 cm.set_geometry(varray, narray, tarray) 
    102603 File
    102604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102605 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102606 arv() 
    102607 File
    102608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102609 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102610 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102611 File
    102612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102613 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102614 s.vertex_colors = self.vertex_colors(report_stats) 
    102615 File
    102616 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102617 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102618 values, outside = self.volume_values() 
    102619 File
    102620 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102621 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102622 return self.offset_values(v, n, tf) 
    102623 File
    102624 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102625 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102626 values, outside = self.vertex_values(v, xf) 
    102627 File
    102628 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102629 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102630 out_of_bounds_list = True) 
    102631 File
    102632 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102633 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102634 subregion, step) 
    102635 File
    102636 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102637 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102638 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102639 File
    102640 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102641 packages/chimerax/map/volume.py", line 1243, in
    102642 matrix_indices_to_xyz_transform 
    102643 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102644 File
    102645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102646 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102647 r = self.subregion(step, subregion) 
    102648 File
    102649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102650 packages/chimerax/map/volume.py", line 1558, in subregion 
    102651 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102652 AttributeError: 'NoneType' object has no attribute 'size' 
    102653  
    102654 AttributeError: 'NoneType' object has no attribute 'size' 
    102655  
    102656 File
    102657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102658 packages/chimerax/map/volume.py", line 1558, in subregion 
    102659 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102660  
    102661 See log for complete Python traceback. 
    102662  
    102663 Traceback (most recent call last): 
    102664 File
    102665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102666 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102667 drew = self.draw_new_frame() 
    102668 File
    102669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102670 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102671 surface.update_clip_caps(view) 
    102672 File
    102673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102674 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102675 subdivision = settings.clipping_cap_subdivision) 
    102676 File
    102677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102678 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102679 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102680 File
    102681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102682 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102683 cm.set_geometry(varray, narray, tarray) 
    102684 File
    102685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102686 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102687 arv() 
    102688 File
    102689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102690 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102691 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102692 File
    102693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102694 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102695 s.vertex_colors = self.vertex_colors(report_stats) 
    102696 File
    102697 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102698 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102699 values, outside = self.volume_values() 
    102700 File
    102701 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102702 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102703 return self.offset_values(v, n, tf) 
    102704 File
    102705 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102706 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102707 values, outside = self.vertex_values(v, xf) 
    102708 File
    102709 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102710 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102711 out_of_bounds_list = True) 
    102712 File
    102713 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102714 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102715 subregion, step) 
    102716 File
    102717 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102718 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102719 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102720 File
    102721 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102722 packages/chimerax/map/volume.py", line 1243, in
    102723 matrix_indices_to_xyz_transform 
    102724 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102725 File
    102726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102727 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102728 r = self.subregion(step, subregion) 
    102729 File
    102730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102731 packages/chimerax/map/volume.py", line 1558, in subregion 
    102732 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102733 AttributeError: 'NoneType' object has no attribute 'size' 
    102734  
    102735 AttributeError: 'NoneType' object has no attribute 'size' 
    102736  
    102737 File
    102738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102739 packages/chimerax/map/volume.py", line 1558, in subregion 
    102740 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102741  
    102742 See log for complete Python traceback. 
    102743  
    102744 Traceback (most recent call last): 
    102745 File
    102746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102747 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102748 drew = self.draw_new_frame() 
    102749 File
    102750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102751 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102752 surface.update_clip_caps(view) 
    102753 File
    102754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102755 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102756 subdivision = settings.clipping_cap_subdivision) 
    102757 File
    102758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102759 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102760 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102761 File
    102762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102763 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102764 cm.set_geometry(varray, narray, tarray) 
    102765 File
    102766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102767 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102768 arv() 
    102769 File
    102770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102771 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102772 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102773 File
    102774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102775 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102776 s.vertex_colors = self.vertex_colors(report_stats) 
    102777 File
    102778 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102779 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102780 values, outside = self.volume_values() 
    102781 File
    102782 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102783 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102784 return self.offset_values(v, n, tf) 
    102785 File
    102786 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102787 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102788 values, outside = self.vertex_values(v, xf) 
    102789 File
    102790 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102791 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102792 out_of_bounds_list = True) 
    102793 File
    102794 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102795 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102796 subregion, step) 
    102797 File
    102798 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102799 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102800 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102801 File
    102802 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102803 packages/chimerax/map/volume.py", line 1243, in
    102804 matrix_indices_to_xyz_transform 
    102805 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102806 File
    102807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102808 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102809 r = self.subregion(step, subregion) 
    102810 File
    102811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102812 packages/chimerax/map/volume.py", line 1558, in subregion 
    102813 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102814 AttributeError: 'NoneType' object has no attribute 'size' 
    102815  
    102816 AttributeError: 'NoneType' object has no attribute 'size' 
    102817  
    102818 File
    102819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102820 packages/chimerax/map/volume.py", line 1558, in subregion 
    102821 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102822  
    102823 See log for complete Python traceback. 
    102824  
    102825 Traceback (most recent call last): 
    102826 File
    102827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102828 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102829 drew = self.draw_new_frame() 
    102830 File
    102831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102832 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102833 surface.update_clip_caps(view) 
    102834 File
    102835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102836 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102837 subdivision = settings.clipping_cap_subdivision) 
    102838 File
    102839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102840 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102841 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102842 File
    102843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102844 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102845 cm.set_geometry(varray, narray, tarray) 
    102846 File
    102847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102848 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102849 arv() 
    102850 File
    102851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102852 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102853 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102854 File
    102855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102856 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102857 s.vertex_colors = self.vertex_colors(report_stats) 
    102858 File
    102859 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102860 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102861 values, outside = self.volume_values() 
    102862 File
    102863 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102864 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102865 return self.offset_values(v, n, tf) 
    102866 File
    102867 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102868 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102869 values, outside = self.vertex_values(v, xf) 
    102870 File
    102871 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102872 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102873 out_of_bounds_list = True) 
    102874 File
    102875 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102876 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102877 subregion, step) 
    102878 File
    102879 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102880 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102881 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102882 File
    102883 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102884 packages/chimerax/map/volume.py", line 1243, in
    102885 matrix_indices_to_xyz_transform 
    102886 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102887 File
    102888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102889 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102890 r = self.subregion(step, subregion) 
    102891 File
    102892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102893 packages/chimerax/map/volume.py", line 1558, in subregion 
    102894 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102895 AttributeError: 'NoneType' object has no attribute 'size' 
    102896  
    102897 AttributeError: 'NoneType' object has no attribute 'size' 
    102898  
    102899 File
    102900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102901 packages/chimerax/map/volume.py", line 1558, in subregion 
    102902 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102903  
    102904 See log for complete Python traceback. 
    102905  
    102906 Traceback (most recent call last): 
    102907 File
    102908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102909 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102910 drew = self.draw_new_frame() 
    102911 File
    102912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102913 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102914 surface.update_clip_caps(view) 
    102915 File
    102916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102917 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102918 subdivision = settings.clipping_cap_subdivision) 
    102919 File
    102920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102921 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    102922 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    102923 File
    102924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102925 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    102926 cm.set_geometry(varray, narray, tarray) 
    102927 File
    102928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102929 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    102930 arv() 
    102931 File
    102932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102933 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    102934 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    102935 File
    102936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102937 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    102938 s.vertex_colors = self.vertex_colors(report_stats) 
    102939 File
    102940 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102941 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    102942 values, outside = self.volume_values() 
    102943 File
    102944 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102945 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    102946 return self.offset_values(v, n, tf) 
    102947 File
    102948 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102949 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    102950 values, outside = self.vertex_values(v, xf) 
    102951 File
    102952 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102953 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    102954 out_of_bounds_list = True) 
    102955 File
    102956 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102957 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    102958 subregion, step) 
    102959 File
    102960 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102961 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    102962 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    102963 File
    102964 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102965 packages/chimerax/map/volume.py", line 1243, in
    102966 matrix_indices_to_xyz_transform 
    102967 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    102968 File
    102969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102970 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    102971 r = self.subregion(step, subregion) 
    102972 File
    102973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102974 packages/chimerax/map/volume.py", line 1558, in subregion 
    102975 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102976 AttributeError: 'NoneType' object has no attribute 'size' 
    102977  
    102978 AttributeError: 'NoneType' object has no attribute 'size' 
    102979  
    102980 File
    102981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102982 packages/chimerax/map/volume.py", line 1558, in subregion 
    102983 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    102984  
    102985 See log for complete Python traceback. 
    102986  
    102987 Traceback (most recent call last): 
    102988 File
    102989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102990 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    102991 drew = self.draw_new_frame() 
    102992 File
    102993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102994 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    102995 surface.update_clip_caps(view) 
    102996 File
    102997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    102998 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    102999 subdivision = settings.clipping_cap_subdivision) 
    103000 File
    103001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103002 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103003 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103004 File
    103005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103006 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103007 cm.set_geometry(varray, narray, tarray) 
    103008 File
    103009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103010 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103011 arv() 
    103012 File
    103013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103014 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103015 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103016 File
    103017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103018 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103019 s.vertex_colors = self.vertex_colors(report_stats) 
    103020 File
    103021 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103022 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103023 values, outside = self.volume_values() 
    103024 File
    103025 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103026 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103027 return self.offset_values(v, n, tf) 
    103028 File
    103029 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103030 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103031 values, outside = self.vertex_values(v, xf) 
    103032 File
    103033 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103034 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103035 out_of_bounds_list = True) 
    103036 File
    103037 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103038 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103039 subregion, step) 
    103040 File
    103041 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103042 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103043 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103044 File
    103045 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103046 packages/chimerax/map/volume.py", line 1243, in
    103047 matrix_indices_to_xyz_transform 
    103048 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103049 File
    103050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103051 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103052 r = self.subregion(step, subregion) 
    103053 File
    103054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103055 packages/chimerax/map/volume.py", line 1558, in subregion 
    103056 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103057 AttributeError: 'NoneType' object has no attribute 'size' 
    103058  
    103059 AttributeError: 'NoneType' object has no attribute 'size' 
    103060  
    103061 File
    103062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103063 packages/chimerax/map/volume.py", line 1558, in subregion 
    103064 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103065  
    103066 See log for complete Python traceback. 
    103067  
    103068 Traceback (most recent call last): 
    103069 File
    103070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103071 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103072 drew = self.draw_new_frame() 
    103073 File
    103074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103075 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103076 surface.update_clip_caps(view) 
    103077 File
    103078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103079 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103080 subdivision = settings.clipping_cap_subdivision) 
    103081 File
    103082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103083 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103084 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103085 File
    103086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103087 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103088 cm.set_geometry(varray, narray, tarray) 
    103089 File
    103090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103091 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103092 arv() 
    103093 File
    103094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103095 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103096 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103097 File
    103098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103099 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103100 s.vertex_colors = self.vertex_colors(report_stats) 
    103101 File
    103102 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103103 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103104 values, outside = self.volume_values() 
    103105 File
    103106 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103107 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103108 return self.offset_values(v, n, tf) 
    103109 File
    103110 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103111 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103112 values, outside = self.vertex_values(v, xf) 
    103113 File
    103114 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103115 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103116 out_of_bounds_list = True) 
    103117 File
    103118 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103119 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103120 subregion, step) 
    103121 File
    103122 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103123 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103124 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103125 File
    103126 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103127 packages/chimerax/map/volume.py", line 1243, in
    103128 matrix_indices_to_xyz_transform 
    103129 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103130 File
    103131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103132 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103133 r = self.subregion(step, subregion) 
    103134 File
    103135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103136 packages/chimerax/map/volume.py", line 1558, in subregion 
    103137 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103138 AttributeError: 'NoneType' object has no attribute 'size' 
    103139  
    103140 AttributeError: 'NoneType' object has no attribute 'size' 
    103141  
    103142 File
    103143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103144 packages/chimerax/map/volume.py", line 1558, in subregion 
    103145 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103146  
    103147 See log for complete Python traceback. 
    103148  
    103149 Traceback (most recent call last): 
    103150 File
    103151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103152 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103153 drew = self.draw_new_frame() 
    103154 File
    103155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103156 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103157 surface.update_clip_caps(view) 
    103158 File
    103159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103160 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103161 subdivision = settings.clipping_cap_subdivision) 
    103162 File
    103163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103164 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103165 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103166 File
    103167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103168 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103169 cm.set_geometry(varray, narray, tarray) 
    103170 File
    103171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103172 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103173 arv() 
    103174 File
    103175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103176 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103177 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103178 File
    103179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103180 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103181 s.vertex_colors = self.vertex_colors(report_stats) 
    103182 File
    103183 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103184 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103185 values, outside = self.volume_values() 
    103186 File
    103187 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103188 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103189 return self.offset_values(v, n, tf) 
    103190 File
    103191 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103192 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103193 values, outside = self.vertex_values(v, xf) 
    103194 File
    103195 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103196 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103197 out_of_bounds_list = True) 
    103198 File
    103199 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103200 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103201 subregion, step) 
    103202 File
    103203 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103204 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103205 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103206 File
    103207 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103208 packages/chimerax/map/volume.py", line 1243, in
    103209 matrix_indices_to_xyz_transform 
    103210 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103211 File
    103212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103213 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103214 r = self.subregion(step, subregion) 
    103215 File
    103216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103217 packages/chimerax/map/volume.py", line 1558, in subregion 
    103218 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103219 AttributeError: 'NoneType' object has no attribute 'size' 
    103220  
    103221 AttributeError: 'NoneType' object has no attribute 'size' 
    103222  
    103223 File
    103224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103225 packages/chimerax/map/volume.py", line 1558, in subregion 
    103226 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103227  
    103228 See log for complete Python traceback. 
    103229  
    103230 Traceback (most recent call last): 
    103231 File
    103232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103233 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103234 drew = self.draw_new_frame() 
    103235 File
    103236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103237 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103238 surface.update_clip_caps(view) 
    103239 File
    103240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103241 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103242 subdivision = settings.clipping_cap_subdivision) 
    103243 File
    103244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103245 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103246 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103247 File
    103248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103249 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103250 cm.set_geometry(varray, narray, tarray) 
    103251 File
    103252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103253 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103254 arv() 
    103255 File
    103256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103257 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103258 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103259 File
    103260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103261 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103262 s.vertex_colors = self.vertex_colors(report_stats) 
    103263 File
    103264 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103265 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103266 values, outside = self.volume_values() 
    103267 File
    103268 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103269 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103270 return self.offset_values(v, n, tf) 
    103271 File
    103272 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103273 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103274 values, outside = self.vertex_values(v, xf) 
    103275 File
    103276 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103277 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103278 out_of_bounds_list = True) 
    103279 File
    103280 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103281 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103282 subregion, step) 
    103283 File
    103284 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103285 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103286 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103287 File
    103288 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103289 packages/chimerax/map/volume.py", line 1243, in
    103290 matrix_indices_to_xyz_transform 
    103291 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103292 File
    103293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103294 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103295 r = self.subregion(step, subregion) 
    103296 File
    103297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103298 packages/chimerax/map/volume.py", line 1558, in subregion 
    103299 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103300 AttributeError: 'NoneType' object has no attribute 'size' 
    103301  
    103302 AttributeError: 'NoneType' object has no attribute 'size' 
    103303  
    103304 File
    103305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103306 packages/chimerax/map/volume.py", line 1558, in subregion 
    103307 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103308  
    103309 See log for complete Python traceback. 
    103310  
    103311 Traceback (most recent call last): 
    103312 File
    103313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103314 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103315 drew = self.draw_new_frame() 
    103316 File
    103317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103318 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103319 surface.update_clip_caps(view) 
    103320 File
    103321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103322 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103323 subdivision = settings.clipping_cap_subdivision) 
    103324 File
    103325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103326 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103327 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103328 File
    103329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103330 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103331 cm.set_geometry(varray, narray, tarray) 
    103332 File
    103333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103334 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103335 arv() 
    103336 File
    103337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103338 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103339 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103340 File
    103341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103342 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103343 s.vertex_colors = self.vertex_colors(report_stats) 
    103344 File
    103345 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103346 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103347 values, outside = self.volume_values() 
    103348 File
    103349 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103350 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103351 return self.offset_values(v, n, tf) 
    103352 File
    103353 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103354 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103355 values, outside = self.vertex_values(v, xf) 
    103356 File
    103357 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103358 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103359 out_of_bounds_list = True) 
    103360 File
    103361 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103362 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103363 subregion, step) 
    103364 File
    103365 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103366 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103367 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103368 File
    103369 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103370 packages/chimerax/map/volume.py", line 1243, in
    103371 matrix_indices_to_xyz_transform 
    103372 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103373 File
    103374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103375 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103376 r = self.subregion(step, subregion) 
    103377 File
    103378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103379 packages/chimerax/map/volume.py", line 1558, in subregion 
    103380 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103381 AttributeError: 'NoneType' object has no attribute 'size' 
    103382  
    103383 AttributeError: 'NoneType' object has no attribute 'size' 
    103384  
    103385 File
    103386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103387 packages/chimerax/map/volume.py", line 1558, in subregion 
    103388 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103389  
    103390 See log for complete Python traceback. 
    103391  
    103392 Traceback (most recent call last): 
    103393 File
    103394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103395 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103396 drew = self.draw_new_frame() 
    103397 File
    103398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103399 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103400 surface.update_clip_caps(view) 
    103401 File
    103402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103403 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103404 subdivision = settings.clipping_cap_subdivision) 
    103405 File
    103406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103407 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103408 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103409 File
    103410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103411 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103412 cm.set_geometry(varray, narray, tarray) 
    103413 File
    103414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103415 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103416 arv() 
    103417 File
    103418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103419 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103420 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103421 File
    103422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103423 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103424 s.vertex_colors = self.vertex_colors(report_stats) 
    103425 File
    103426 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103427 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103428 values, outside = self.volume_values() 
    103429 File
    103430 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103431 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103432 return self.offset_values(v, n, tf) 
    103433 File
    103434 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103435 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103436 values, outside = self.vertex_values(v, xf) 
    103437 File
    103438 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103439 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103440 out_of_bounds_list = True) 
    103441 File
    103442 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103443 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103444 subregion, step) 
    103445 File
    103446 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103447 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103448 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103449 File
    103450 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103451 packages/chimerax/map/volume.py", line 1243, in
    103452 matrix_indices_to_xyz_transform 
    103453 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103454 File
    103455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103456 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103457 r = self.subregion(step, subregion) 
    103458 File
    103459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103460 packages/chimerax/map/volume.py", line 1558, in subregion 
    103461 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103462 AttributeError: 'NoneType' object has no attribute 'size' 
    103463  
    103464 AttributeError: 'NoneType' object has no attribute 'size' 
    103465  
    103466 File
    103467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103468 packages/chimerax/map/volume.py", line 1558, in subregion 
    103469 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103470  
    103471 See log for complete Python traceback. 
    103472  
    103473 Traceback (most recent call last): 
    103474 File
    103475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103476 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103477 drew = self.draw_new_frame() 
    103478 File
    103479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103480 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103481 surface.update_clip_caps(view) 
    103482 File
    103483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103484 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103485 subdivision = settings.clipping_cap_subdivision) 
    103486 File
    103487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103488 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103489 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103490 File
    103491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103492 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103493 cm.set_geometry(varray, narray, tarray) 
    103494 File
    103495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103496 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103497 arv() 
    103498 File
    103499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103500 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103501 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103502 File
    103503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103504 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103505 s.vertex_colors = self.vertex_colors(report_stats) 
    103506 File
    103507 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103508 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103509 values, outside = self.volume_values() 
    103510 File
    103511 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103512 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103513 return self.offset_values(v, n, tf) 
    103514 File
    103515 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103516 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103517 values, outside = self.vertex_values(v, xf) 
    103518 File
    103519 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103520 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103521 out_of_bounds_list = True) 
    103522 File
    103523 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103524 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103525 subregion, step) 
    103526 File
    103527 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103528 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103529 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103530 File
    103531 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103532 packages/chimerax/map/volume.py", line 1243, in
    103533 matrix_indices_to_xyz_transform 
    103534 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103535 File
    103536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103537 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103538 r = self.subregion(step, subregion) 
    103539 File
    103540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103541 packages/chimerax/map/volume.py", line 1558, in subregion 
    103542 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103543 AttributeError: 'NoneType' object has no attribute 'size' 
    103544  
    103545 AttributeError: 'NoneType' object has no attribute 'size' 
    103546  
    103547 File
    103548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103549 packages/chimerax/map/volume.py", line 1558, in subregion 
    103550 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103551  
    103552 See log for complete Python traceback. 
    103553  
    103554 Traceback (most recent call last): 
    103555 File
    103556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103557 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103558 drew = self.draw_new_frame() 
    103559 File
    103560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103561 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103562 surface.update_clip_caps(view) 
    103563 File
    103564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103565 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103566 subdivision = settings.clipping_cap_subdivision) 
    103567 File
    103568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103569 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103570 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103571 File
    103572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103573 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103574 cm.set_geometry(varray, narray, tarray) 
    103575 File
    103576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103577 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103578 arv() 
    103579 File
    103580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103581 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103582 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103583 File
    103584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103585 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103586 s.vertex_colors = self.vertex_colors(report_stats) 
    103587 File
    103588 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103589 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103590 values, outside = self.volume_values() 
    103591 File
    103592 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103593 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103594 return self.offset_values(v, n, tf) 
    103595 File
    103596 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103597 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103598 values, outside = self.vertex_values(v, xf) 
    103599 File
    103600 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103601 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103602 out_of_bounds_list = True) 
    103603 File
    103604 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103605 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103606 subregion, step) 
    103607 File
    103608 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103609 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103610 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103611 File
    103612 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103613 packages/chimerax/map/volume.py", line 1243, in
    103614 matrix_indices_to_xyz_transform 
    103615 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103616 File
    103617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103618 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103619 r = self.subregion(step, subregion) 
    103620 File
    103621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103622 packages/chimerax/map/volume.py", line 1558, in subregion 
    103623 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103624 AttributeError: 'NoneType' object has no attribute 'size' 
    103625  
    103626 AttributeError: 'NoneType' object has no attribute 'size' 
    103627  
    103628 File
    103629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103630 packages/chimerax/map/volume.py", line 1558, in subregion 
    103631 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103632  
    103633 See log for complete Python traceback. 
    103634  
    103635 Traceback (most recent call last): 
    103636 File
    103637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103638 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103639 drew = self.draw_new_frame() 
    103640 File
    103641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103642 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103643 surface.update_clip_caps(view) 
    103644 File
    103645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103646 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103647 subdivision = settings.clipping_cap_subdivision) 
    103648 File
    103649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103650 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103651 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103652 File
    103653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103654 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103655 cm.set_geometry(varray, narray, tarray) 
    103656 File
    103657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103658 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103659 arv() 
    103660 File
    103661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103662 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103663 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103664 File
    103665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103666 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103667 s.vertex_colors = self.vertex_colors(report_stats) 
    103668 File
    103669 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103670 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103671 values, outside = self.volume_values() 
    103672 File
    103673 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103674 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103675 return self.offset_values(v, n, tf) 
    103676 File
    103677 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103678 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103679 values, outside = self.vertex_values(v, xf) 
    103680 File
    103681 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103682 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103683 out_of_bounds_list = True) 
    103684 File
    103685 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103686 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103687 subregion, step) 
    103688 File
    103689 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103690 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103691 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103692 File
    103693 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103694 packages/chimerax/map/volume.py", line 1243, in
    103695 matrix_indices_to_xyz_transform 
    103696 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103697 File
    103698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103699 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103700 r = self.subregion(step, subregion) 
    103701 File
    103702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103703 packages/chimerax/map/volume.py", line 1558, in subregion 
    103704 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103705 AttributeError: 'NoneType' object has no attribute 'size' 
    103706  
    103707 AttributeError: 'NoneType' object has no attribute 'size' 
    103708  
    103709 File
    103710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103711 packages/chimerax/map/volume.py", line 1558, in subregion 
    103712 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103713  
    103714 See log for complete Python traceback. 
    103715  
    103716 Traceback (most recent call last): 
    103717 File
    103718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103719 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103720 drew = self.draw_new_frame() 
    103721 File
    103722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103723 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103724 surface.update_clip_caps(view) 
    103725 File
    103726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103727 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103728 subdivision = settings.clipping_cap_subdivision) 
    103729 File
    103730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103731 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103732 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103733 File
    103734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103735 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103736 cm.set_geometry(varray, narray, tarray) 
    103737 File
    103738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103739 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103740 arv() 
    103741 File
    103742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103743 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103744 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103745 File
    103746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103747 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103748 s.vertex_colors = self.vertex_colors(report_stats) 
    103749 File
    103750 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103751 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103752 values, outside = self.volume_values() 
    103753 File
    103754 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103755 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103756 return self.offset_values(v, n, tf) 
    103757 File
    103758 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103759 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103760 values, outside = self.vertex_values(v, xf) 
    103761 File
    103762 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103763 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103764 out_of_bounds_list = True) 
    103765 File
    103766 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103767 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103768 subregion, step) 
    103769 File
    103770 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103771 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103772 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103773 File
    103774 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103775 packages/chimerax/map/volume.py", line 1243, in
    103776 matrix_indices_to_xyz_transform 
    103777 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103778 File
    103779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103780 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103781 r = self.subregion(step, subregion) 
    103782 File
    103783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103784 packages/chimerax/map/volume.py", line 1558, in subregion 
    103785 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103786 AttributeError: 'NoneType' object has no attribute 'size' 
    103787  
    103788 AttributeError: 'NoneType' object has no attribute 'size' 
    103789  
    103790 File
    103791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103792 packages/chimerax/map/volume.py", line 1558, in subregion 
    103793 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103794  
    103795 See log for complete Python traceback. 
    103796  
    103797 Traceback (most recent call last): 
    103798 File
    103799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103800 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103801 drew = self.draw_new_frame() 
    103802 File
    103803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103804 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103805 surface.update_clip_caps(view) 
    103806 File
    103807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103808 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103809 subdivision = settings.clipping_cap_subdivision) 
    103810 File
    103811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103812 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103813 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103814 File
    103815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103816 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103817 cm.set_geometry(varray, narray, tarray) 
    103818 File
    103819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103820 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103821 arv() 
    103822 File
    103823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103824 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103825 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103826 File
    103827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103828 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103829 s.vertex_colors = self.vertex_colors(report_stats) 
    103830 File
    103831 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103832 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103833 values, outside = self.volume_values() 
    103834 File
    103835 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103836 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103837 return self.offset_values(v, n, tf) 
    103838 File
    103839 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103840 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103841 values, outside = self.vertex_values(v, xf) 
    103842 File
    103843 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103844 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103845 out_of_bounds_list = True) 
    103846 File
    103847 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103848 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103849 subregion, step) 
    103850 File
    103851 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103852 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103853 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103854 File
    103855 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103856 packages/chimerax/map/volume.py", line 1243, in
    103857 matrix_indices_to_xyz_transform 
    103858 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103859 File
    103860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103861 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103862 r = self.subregion(step, subregion) 
    103863 File
    103864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103865 packages/chimerax/map/volume.py", line 1558, in subregion 
    103866 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103867 AttributeError: 'NoneType' object has no attribute 'size' 
    103868  
    103869 AttributeError: 'NoneType' object has no attribute 'size' 
    103870  
    103871 File
    103872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103873 packages/chimerax/map/volume.py", line 1558, in subregion 
    103874 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103875  
    103876 See log for complete Python traceback. 
    103877  
    103878 Traceback (most recent call last): 
    103879 File
    103880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103881 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103882 drew = self.draw_new_frame() 
    103883 File
    103884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103885 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103886 surface.update_clip_caps(view) 
    103887 File
    103888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103889 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103890 subdivision = settings.clipping_cap_subdivision) 
    103891 File
    103892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103893 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103894 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103895 File
    103896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103897 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103898 cm.set_geometry(varray, narray, tarray) 
    103899 File
    103900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103901 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103902 arv() 
    103903 File
    103904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103905 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103906 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103907 File
    103908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103909 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103910 s.vertex_colors = self.vertex_colors(report_stats) 
    103911 File
    103912 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103913 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103914 values, outside = self.volume_values() 
    103915 File
    103916 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103917 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103918 return self.offset_values(v, n, tf) 
    103919 File
    103920 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103921 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    103922 values, outside = self.vertex_values(v, xf) 
    103923 File
    103924 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103925 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    103926 out_of_bounds_list = True) 
    103927 File
    103928 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103929 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    103930 subregion, step) 
    103931 File
    103932 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103933 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    103934 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    103935 File
    103936 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103937 packages/chimerax/map/volume.py", line 1243, in
    103938 matrix_indices_to_xyz_transform 
    103939 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    103940 File
    103941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103942 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    103943 r = self.subregion(step, subregion) 
    103944 File
    103945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103946 packages/chimerax/map/volume.py", line 1558, in subregion 
    103947 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103948 AttributeError: 'NoneType' object has no attribute 'size' 
    103949  
    103950 AttributeError: 'NoneType' object has no attribute 'size' 
    103951  
    103952 File
    103953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103954 packages/chimerax/map/volume.py", line 1558, in subregion 
    103955 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    103956  
    103957 See log for complete Python traceback. 
    103958  
    103959 Traceback (most recent call last): 
    103960 File
    103961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103962 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    103963 drew = self.draw_new_frame() 
    103964 File
    103965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103966 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    103967 surface.update_clip_caps(view) 
    103968 File
    103969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103970 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    103971 subdivision = settings.clipping_cap_subdivision) 
    103972 File
    103973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103974 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    103975 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    103976 File
    103977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103978 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    103979 cm.set_geometry(varray, narray, tarray) 
    103980 File
    103981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103982 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    103983 arv() 
    103984 File
    103985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103986 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    103987 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    103988 File
    103989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103990 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    103991 s.vertex_colors = self.vertex_colors(report_stats) 
    103992 File
    103993 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103994 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    103995 values, outside = self.volume_values() 
    103996 File
    103997 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    103998 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    103999 return self.offset_values(v, n, tf) 
    104000 File
    104001 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104002 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104003 values, outside = self.vertex_values(v, xf) 
    104004 File
    104005 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104006 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104007 out_of_bounds_list = True) 
    104008 File
    104009 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104010 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104011 subregion, step) 
    104012 File
    104013 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104014 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104015 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104016 File
    104017 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104018 packages/chimerax/map/volume.py", line 1243, in
    104019 matrix_indices_to_xyz_transform 
    104020 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104021 File
    104022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104023 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104024 r = self.subregion(step, subregion) 
    104025 File
    104026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104027 packages/chimerax/map/volume.py", line 1558, in subregion 
    104028 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104029 AttributeError: 'NoneType' object has no attribute 'size' 
    104030  
    104031 AttributeError: 'NoneType' object has no attribute 'size' 
    104032  
    104033 File
    104034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104035 packages/chimerax/map/volume.py", line 1558, in subregion 
    104036 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104037  
    104038 See log for complete Python traceback. 
    104039  
    104040 Traceback (most recent call last): 
    104041 File
    104042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104043 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104044 drew = self.draw_new_frame() 
    104045 File
    104046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104047 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104048 surface.update_clip_caps(view) 
    104049 File
    104050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104051 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104052 subdivision = settings.clipping_cap_subdivision) 
    104053 File
    104054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104055 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104056 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104057 File
    104058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104059 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104060 cm.set_geometry(varray, narray, tarray) 
    104061 File
    104062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104063 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104064 arv() 
    104065 File
    104066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104067 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104068 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104069 File
    104070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104071 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104072 s.vertex_colors = self.vertex_colors(report_stats) 
    104073 File
    104074 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104075 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104076 values, outside = self.volume_values() 
    104077 File
    104078 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104079 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104080 return self.offset_values(v, n, tf) 
    104081 File
    104082 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104083 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104084 values, outside = self.vertex_values(v, xf) 
    104085 File
    104086 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104087 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104088 out_of_bounds_list = True) 
    104089 File
    104090 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104091 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104092 subregion, step) 
    104093 File
    104094 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104095 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104096 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104097 File
    104098 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104099 packages/chimerax/map/volume.py", line 1243, in
    104100 matrix_indices_to_xyz_transform 
    104101 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104102 File
    104103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104104 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104105 r = self.subregion(step, subregion) 
    104106 File
    104107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104108 packages/chimerax/map/volume.py", line 1558, in subregion 
    104109 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104110 AttributeError: 'NoneType' object has no attribute 'size' 
    104111  
    104112 AttributeError: 'NoneType' object has no attribute 'size' 
    104113  
    104114 File
    104115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104116 packages/chimerax/map/volume.py", line 1558, in subregion 
    104117 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104118  
    104119 See log for complete Python traceback. 
    104120  
    104121 Traceback (most recent call last): 
    104122 File
    104123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104124 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104125 drew = self.draw_new_frame() 
    104126 File
    104127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104128 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104129 surface.update_clip_caps(view) 
    104130 File
    104131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104132 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104133 subdivision = settings.clipping_cap_subdivision) 
    104134 File
    104135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104136 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104137 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104138 File
    104139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104140 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104141 cm.set_geometry(varray, narray, tarray) 
    104142 File
    104143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104144 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104145 arv() 
    104146 File
    104147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104148 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104149 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104150 File
    104151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104152 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104153 s.vertex_colors = self.vertex_colors(report_stats) 
    104154 File
    104155 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104156 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104157 values, outside = self.volume_values() 
    104158 File
    104159 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104160 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104161 return self.offset_values(v, n, tf) 
    104162 File
    104163 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104164 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104165 values, outside = self.vertex_values(v, xf) 
    104166 File
    104167 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104168 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104169 out_of_bounds_list = True) 
    104170 File
    104171 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104172 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104173 subregion, step) 
    104174 File
    104175 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104176 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104177 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104178 File
    104179 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104180 packages/chimerax/map/volume.py", line 1243, in
    104181 matrix_indices_to_xyz_transform 
    104182 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104183 File
    104184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104185 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104186 r = self.subregion(step, subregion) 
    104187 File
    104188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104189 packages/chimerax/map/volume.py", line 1558, in subregion 
    104190 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104191 AttributeError: 'NoneType' object has no attribute 'size' 
    104192  
    104193 AttributeError: 'NoneType' object has no attribute 'size' 
    104194  
    104195 File
    104196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104197 packages/chimerax/map/volume.py", line 1558, in subregion 
    104198 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104199  
    104200 See log for complete Python traceback. 
    104201  
    104202 Traceback (most recent call last): 
    104203 File
    104204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104205 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104206 drew = self.draw_new_frame() 
    104207 File
    104208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104209 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104210 surface.update_clip_caps(view) 
    104211 File
    104212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104213 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104214 subdivision = settings.clipping_cap_subdivision) 
    104215 File
    104216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104217 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104218 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104219 File
    104220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104221 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104222 cm.set_geometry(varray, narray, tarray) 
    104223 File
    104224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104225 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104226 arv() 
    104227 File
    104228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104229 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104230 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104231 File
    104232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104233 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104234 s.vertex_colors = self.vertex_colors(report_stats) 
    104235 File
    104236 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104237 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104238 values, outside = self.volume_values() 
    104239 File
    104240 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104241 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104242 return self.offset_values(v, n, tf) 
    104243 File
    104244 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104245 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104246 values, outside = self.vertex_values(v, xf) 
    104247 File
    104248 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104249 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104250 out_of_bounds_list = True) 
    104251 File
    104252 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104253 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104254 subregion, step) 
    104255 File
    104256 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104257 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104258 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104259 File
    104260 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104261 packages/chimerax/map/volume.py", line 1243, in
    104262 matrix_indices_to_xyz_transform 
    104263 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104264 File
    104265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104266 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104267 r = self.subregion(step, subregion) 
    104268 File
    104269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104270 packages/chimerax/map/volume.py", line 1558, in subregion 
    104271 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104272 AttributeError: 'NoneType' object has no attribute 'size' 
    104273  
    104274 AttributeError: 'NoneType' object has no attribute 'size' 
    104275  
    104276 File
    104277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104278 packages/chimerax/map/volume.py", line 1558, in subregion 
    104279 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104280  
    104281 See log for complete Python traceback. 
    104282  
    104283 Traceback (most recent call last): 
    104284 File
    104285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104286 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104287 drew = self.draw_new_frame() 
    104288 File
    104289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104290 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104291 surface.update_clip_caps(view) 
    104292 File
    104293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104294 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104295 subdivision = settings.clipping_cap_subdivision) 
    104296 File
    104297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104298 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104299 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104300 File
    104301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104302 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104303 cm.set_geometry(varray, narray, tarray) 
    104304 File
    104305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104306 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104307 arv() 
    104308 File
    104309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104310 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104311 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104312 File
    104313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104314 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104315 s.vertex_colors = self.vertex_colors(report_stats) 
    104316 File
    104317 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104318 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104319 values, outside = self.volume_values() 
    104320 File
    104321 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104322 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104323 return self.offset_values(v, n, tf) 
    104324 File
    104325 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104326 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104327 values, outside = self.vertex_values(v, xf) 
    104328 File
    104329 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104330 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104331 out_of_bounds_list = True) 
    104332 File
    104333 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104334 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104335 subregion, step) 
    104336 File
    104337 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104338 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104339 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104340 File
    104341 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104342 packages/chimerax/map/volume.py", line 1243, in
    104343 matrix_indices_to_xyz_transform 
    104344 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104345 File
    104346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104347 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104348 r = self.subregion(step, subregion) 
    104349 File
    104350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104351 packages/chimerax/map/volume.py", line 1558, in subregion 
    104352 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104353 AttributeError: 'NoneType' object has no attribute 'size' 
    104354  
    104355 AttributeError: 'NoneType' object has no attribute 'size' 
    104356  
    104357 File
    104358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104359 packages/chimerax/map/volume.py", line 1558, in subregion 
    104360 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104361  
    104362 See log for complete Python traceback. 
    104363  
    104364 Traceback (most recent call last): 
    104365 File
    104366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104367 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104368 drew = self.draw_new_frame() 
    104369 File
    104370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104371 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104372 surface.update_clip_caps(view) 
    104373 File
    104374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104375 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104376 subdivision = settings.clipping_cap_subdivision) 
    104377 File
    104378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104379 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104380 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104381 File
    104382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104383 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104384 cm.set_geometry(varray, narray, tarray) 
    104385 File
    104386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104387 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104388 arv() 
    104389 File
    104390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104391 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104392 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104393 File
    104394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104395 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104396 s.vertex_colors = self.vertex_colors(report_stats) 
    104397 File
    104398 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104399 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104400 values, outside = self.volume_values() 
    104401 File
    104402 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104403 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104404 return self.offset_values(v, n, tf) 
    104405 File
    104406 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104407 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104408 values, outside = self.vertex_values(v, xf) 
    104409 File
    104410 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104411 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104412 out_of_bounds_list = True) 
    104413 File
    104414 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104415 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104416 subregion, step) 
    104417 File
    104418 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104419 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104420 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104421 File
    104422 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104423 packages/chimerax/map/volume.py", line 1243, in
    104424 matrix_indices_to_xyz_transform 
    104425 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104426 File
    104427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104428 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104429 r = self.subregion(step, subregion) 
    104430 File
    104431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104432 packages/chimerax/map/volume.py", line 1558, in subregion 
    104433 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104434 AttributeError: 'NoneType' object has no attribute 'size' 
    104435  
    104436 AttributeError: 'NoneType' object has no attribute 'size' 
    104437  
    104438 File
    104439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104440 packages/chimerax/map/volume.py", line 1558, in subregion 
    104441 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104442  
    104443 See log for complete Python traceback. 
    104444  
    104445 Traceback (most recent call last): 
    104446 File
    104447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104448 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104449 drew = self.draw_new_frame() 
    104450 File
    104451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104452 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104453 surface.update_clip_caps(view) 
    104454 File
    104455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104456 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104457 subdivision = settings.clipping_cap_subdivision) 
    104458 File
    104459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104460 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104461 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104462 File
    104463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104464 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104465 cm.set_geometry(varray, narray, tarray) 
    104466 File
    104467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104468 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104469 arv() 
    104470 File
    104471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104472 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104473 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104474 File
    104475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104476 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104477 s.vertex_colors = self.vertex_colors(report_stats) 
    104478 File
    104479 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104480 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104481 values, outside = self.volume_values() 
    104482 File
    104483 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104484 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104485 return self.offset_values(v, n, tf) 
    104486 File
    104487 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104488 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104489 values, outside = self.vertex_values(v, xf) 
    104490 File
    104491 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104492 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104493 out_of_bounds_list = True) 
    104494 File
    104495 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104496 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104497 subregion, step) 
    104498 File
    104499 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104500 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104501 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104502 File
    104503 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104504 packages/chimerax/map/volume.py", line 1243, in
    104505 matrix_indices_to_xyz_transform 
    104506 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104507 File
    104508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104509 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104510 r = self.subregion(step, subregion) 
    104511 File
    104512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104513 packages/chimerax/map/volume.py", line 1558, in subregion 
    104514 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104515 AttributeError: 'NoneType' object has no attribute 'size' 
    104516  
    104517 AttributeError: 'NoneType' object has no attribute 'size' 
    104518  
    104519 File
    104520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104521 packages/chimerax/map/volume.py", line 1558, in subregion 
    104522 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104523  
    104524 See log for complete Python traceback. 
    104525  
    104526 Traceback (most recent call last): 
    104527 File
    104528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104529 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104530 drew = self.draw_new_frame() 
    104531 File
    104532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104533 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104534 surface.update_clip_caps(view) 
    104535 File
    104536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104537 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104538 subdivision = settings.clipping_cap_subdivision) 
    104539 File
    104540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104541 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104542 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104543 File
    104544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104545 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104546 cm.set_geometry(varray, narray, tarray) 
    104547 File
    104548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104549 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104550 arv() 
    104551 File
    104552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104553 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104554 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104555 File
    104556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104557 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104558 s.vertex_colors = self.vertex_colors(report_stats) 
    104559 File
    104560 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104561 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104562 values, outside = self.volume_values() 
    104563 File
    104564 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104565 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104566 return self.offset_values(v, n, tf) 
    104567 File
    104568 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104569 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104570 values, outside = self.vertex_values(v, xf) 
    104571 File
    104572 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104573 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104574 out_of_bounds_list = True) 
    104575 File
    104576 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104577 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104578 subregion, step) 
    104579 File
    104580 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104581 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104582 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104583 File
    104584 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104585 packages/chimerax/map/volume.py", line 1243, in
    104586 matrix_indices_to_xyz_transform 
    104587 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104588 File
    104589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104590 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104591 r = self.subregion(step, subregion) 
    104592 File
    104593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104594 packages/chimerax/map/volume.py", line 1558, in subregion 
    104595 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104596 AttributeError: 'NoneType' object has no attribute 'size' 
    104597  
    104598 AttributeError: 'NoneType' object has no attribute 'size' 
    104599  
    104600 File
    104601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104602 packages/chimerax/map/volume.py", line 1558, in subregion 
    104603 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104604  
    104605 See log for complete Python traceback. 
    104606  
    104607 Traceback (most recent call last): 
    104608 File
    104609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104610 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104611 drew = self.draw_new_frame() 
    104612 File
    104613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104614 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104615 surface.update_clip_caps(view) 
    104616 File
    104617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104618 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104619 subdivision = settings.clipping_cap_subdivision) 
    104620 File
    104621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104622 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104623 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104624 File
    104625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104626 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104627 cm.set_geometry(varray, narray, tarray) 
    104628 File
    104629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104630 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104631 arv() 
    104632 File
    104633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104634 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104635 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104636 File
    104637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104638 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104639 s.vertex_colors = self.vertex_colors(report_stats) 
    104640 File
    104641 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104642 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104643 values, outside = self.volume_values() 
    104644 File
    104645 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104646 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104647 return self.offset_values(v, n, tf) 
    104648 File
    104649 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104650 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104651 values, outside = self.vertex_values(v, xf) 
    104652 File
    104653 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104654 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104655 out_of_bounds_list = True) 
    104656 File
    104657 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104658 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104659 subregion, step) 
    104660 File
    104661 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104662 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104663 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104664 File
    104665 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104666 packages/chimerax/map/volume.py", line 1243, in
    104667 matrix_indices_to_xyz_transform 
    104668 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104669 File
    104670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104671 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104672 r = self.subregion(step, subregion) 
    104673 File
    104674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104675 packages/chimerax/map/volume.py", line 1558, in subregion 
    104676 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104677 AttributeError: 'NoneType' object has no attribute 'size' 
    104678  
    104679 AttributeError: 'NoneType' object has no attribute 'size' 
    104680  
    104681 File
    104682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104683 packages/chimerax/map/volume.py", line 1558, in subregion 
    104684 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104685  
    104686 See log for complete Python traceback. 
    104687  
    104688 Traceback (most recent call last): 
    104689 File
    104690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104691 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104692 drew = self.draw_new_frame() 
    104693 File
    104694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104695 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104696 surface.update_clip_caps(view) 
    104697 File
    104698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104699 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104700 subdivision = settings.clipping_cap_subdivision) 
    104701 File
    104702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104703 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104704 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104705 File
    104706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104707 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104708 cm.set_geometry(varray, narray, tarray) 
    104709 File
    104710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104711 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104712 arv() 
    104713 File
    104714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104715 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104716 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104717 File
    104718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104719 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104720 s.vertex_colors = self.vertex_colors(report_stats) 
    104721 File
    104722 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104723 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104724 values, outside = self.volume_values() 
    104725 File
    104726 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104727 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104728 return self.offset_values(v, n, tf) 
    104729 File
    104730 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104731 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104732 values, outside = self.vertex_values(v, xf) 
    104733 File
    104734 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104735 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104736 out_of_bounds_list = True) 
    104737 File
    104738 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104739 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104740 subregion, step) 
    104741 File
    104742 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104743 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104744 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104745 File
    104746 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104747 packages/chimerax/map/volume.py", line 1243, in
    104748 matrix_indices_to_xyz_transform 
    104749 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104750 File
    104751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104752 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104753 r = self.subregion(step, subregion) 
    104754 File
    104755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104756 packages/chimerax/map/volume.py", line 1558, in subregion 
    104757 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104758 AttributeError: 'NoneType' object has no attribute 'size' 
    104759  
    104760 AttributeError: 'NoneType' object has no attribute 'size' 
    104761  
    104762 File
    104763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104764 packages/chimerax/map/volume.py", line 1558, in subregion 
    104765 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104766  
    104767 See log for complete Python traceback. 
    104768  
    104769 Traceback (most recent call last): 
    104770 File
    104771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104772 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104773 drew = self.draw_new_frame() 
    104774 File
    104775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104776 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104777 surface.update_clip_caps(view) 
    104778 File
    104779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104780 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104781 subdivision = settings.clipping_cap_subdivision) 
    104782 File
    104783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104784 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104785 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104786 File
    104787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104788 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104789 cm.set_geometry(varray, narray, tarray) 
    104790 File
    104791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104792 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104793 arv() 
    104794 File
    104795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104796 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104797 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104798 File
    104799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104800 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104801 s.vertex_colors = self.vertex_colors(report_stats) 
    104802 File
    104803 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104804 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104805 values, outside = self.volume_values() 
    104806 File
    104807 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104808 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104809 return self.offset_values(v, n, tf) 
    104810 File
    104811 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104812 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104813 values, outside = self.vertex_values(v, xf) 
    104814 File
    104815 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104816 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104817 out_of_bounds_list = True) 
    104818 File
    104819 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104820 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104821 subregion, step) 
    104822 File
    104823 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104824 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104825 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104826 File
    104827 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104828 packages/chimerax/map/volume.py", line 1243, in
    104829 matrix_indices_to_xyz_transform 
    104830 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104831 File
    104832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104833 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104834 r = self.subregion(step, subregion) 
    104835 File
    104836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104837 packages/chimerax/map/volume.py", line 1558, in subregion 
    104838 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104839 AttributeError: 'NoneType' object has no attribute 'size' 
    104840  
    104841 AttributeError: 'NoneType' object has no attribute 'size' 
    104842  
    104843 File
    104844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104845 packages/chimerax/map/volume.py", line 1558, in subregion 
    104846 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104847  
    104848 See log for complete Python traceback. 
    104849  
    104850 Traceback (most recent call last): 
    104851 File
    104852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104853 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104854 drew = self.draw_new_frame() 
    104855 File
    104856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104857 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104858 surface.update_clip_caps(view) 
    104859 File
    104860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104861 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104862 subdivision = settings.clipping_cap_subdivision) 
    104863 File
    104864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104865 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104866 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104867 File
    104868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104869 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104870 cm.set_geometry(varray, narray, tarray) 
    104871 File
    104872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104873 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104874 arv() 
    104875 File
    104876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104877 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104878 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104879 File
    104880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104881 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104882 s.vertex_colors = self.vertex_colors(report_stats) 
    104883 File
    104884 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104885 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104886 values, outside = self.volume_values() 
    104887 File
    104888 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104889 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104890 return self.offset_values(v, n, tf) 
    104891 File
    104892 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104893 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104894 values, outside = self.vertex_values(v, xf) 
    104895 File
    104896 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104897 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104898 out_of_bounds_list = True) 
    104899 File
    104900 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104901 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104902 subregion, step) 
    104903 File
    104904 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104905 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104906 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104907 File
    104908 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104909 packages/chimerax/map/volume.py", line 1243, in
    104910 matrix_indices_to_xyz_transform 
    104911 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104912 File
    104913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104914 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104915 r = self.subregion(step, subregion) 
    104916 File
    104917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104918 packages/chimerax/map/volume.py", line 1558, in subregion 
    104919 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104920 AttributeError: 'NoneType' object has no attribute 'size' 
    104921  
    104922 AttributeError: 'NoneType' object has no attribute 'size' 
    104923  
    104924 File
    104925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104926 packages/chimerax/map/volume.py", line 1558, in subregion 
    104927 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    104928  
    104929 See log for complete Python traceback. 
    104930  
    104931 Traceback (most recent call last): 
    104932 File
    104933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104934 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    104935 drew = self.draw_new_frame() 
    104936 File
    104937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104938 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    104939 surface.update_clip_caps(view) 
    104940 File
    104941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104942 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    104943 subdivision = settings.clipping_cap_subdivision) 
    104944 File
    104945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104946 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    104947 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    104948 File
    104949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104950 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    104951 cm.set_geometry(varray, narray, tarray) 
    104952 File
    104953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104954 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    104955 arv() 
    104956 File
    104957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104958 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    104959 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    104960 File
    104961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104962 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    104963 s.vertex_colors = self.vertex_colors(report_stats) 
    104964 File
    104965 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104966 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    104967 values, outside = self.volume_values() 
    104968 File
    104969 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104970 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    104971 return self.offset_values(v, n, tf) 
    104972 File
    104973 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104974 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    104975 values, outside = self.vertex_values(v, xf) 
    104976 File
    104977 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104978 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    104979 out_of_bounds_list = True) 
    104980 File
    104981 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104982 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    104983 subregion, step) 
    104984 File
    104985 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104986 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    104987 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    104988 File
    104989 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104990 packages/chimerax/map/volume.py", line 1243, in
    104991 matrix_indices_to_xyz_transform 
    104992 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    104993 File
    104994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104995 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    104996 r = self.subregion(step, subregion) 
    104997 File
    104998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    104999 packages/chimerax/map/volume.py", line 1558, in subregion 
    105000 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105001 AttributeError: 'NoneType' object has no attribute 'size' 
    105002  
    105003 AttributeError: 'NoneType' object has no attribute 'size' 
    105004  
    105005 File
    105006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105007 packages/chimerax/map/volume.py", line 1558, in subregion 
    105008 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105009  
    105010 See log for complete Python traceback. 
    105011  
    105012 Traceback (most recent call last): 
    105013 File
    105014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105015 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105016 drew = self.draw_new_frame() 
    105017 File
    105018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105019 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105020 surface.update_clip_caps(view) 
    105021 File
    105022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105023 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105024 subdivision = settings.clipping_cap_subdivision) 
    105025 File
    105026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105027 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105028 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105029 File
    105030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105031 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105032 cm.set_geometry(varray, narray, tarray) 
    105033 File
    105034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105035 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105036 arv() 
    105037 File
    105038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105039 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105040 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105041 File
    105042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105043 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105044 s.vertex_colors = self.vertex_colors(report_stats) 
    105045 File
    105046 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105047 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105048 values, outside = self.volume_values() 
    105049 File
    105050 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105051 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105052 return self.offset_values(v, n, tf) 
    105053 File
    105054 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105055 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105056 values, outside = self.vertex_values(v, xf) 
    105057 File
    105058 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105059 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105060 out_of_bounds_list = True) 
    105061 File
    105062 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105063 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105064 subregion, step) 
    105065 File
    105066 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105067 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105068 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105069 File
    105070 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105071 packages/chimerax/map/volume.py", line 1243, in
    105072 matrix_indices_to_xyz_transform 
    105073 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105074 File
    105075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105076 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105077 r = self.subregion(step, subregion) 
    105078 File
    105079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105080 packages/chimerax/map/volume.py", line 1558, in subregion 
    105081 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105082 AttributeError: 'NoneType' object has no attribute 'size' 
    105083  
    105084 AttributeError: 'NoneType' object has no attribute 'size' 
    105085  
    105086 File
    105087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105088 packages/chimerax/map/volume.py", line 1558, in subregion 
    105089 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105090  
    105091 See log for complete Python traceback. 
    105092  
    105093 Traceback (most recent call last): 
    105094 File
    105095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105096 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105097 drew = self.draw_new_frame() 
    105098 File
    105099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105100 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105101 surface.update_clip_caps(view) 
    105102 File
    105103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105104 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105105 subdivision = settings.clipping_cap_subdivision) 
    105106 File
    105107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105108 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105109 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105110 File
    105111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105112 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105113 cm.set_geometry(varray, narray, tarray) 
    105114 File
    105115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105116 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105117 arv() 
    105118 File
    105119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105120 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105121 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105122 File
    105123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105124 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105125 s.vertex_colors = self.vertex_colors(report_stats) 
    105126 File
    105127 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105128 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105129 values, outside = self.volume_values() 
    105130 File
    105131 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105132 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105133 return self.offset_values(v, n, tf) 
    105134 File
    105135 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105136 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105137 values, outside = self.vertex_values(v, xf) 
    105138 File
    105139 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105140 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105141 out_of_bounds_list = True) 
    105142 File
    105143 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105144 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105145 subregion, step) 
    105146 File
    105147 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105148 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105149 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105150 File
    105151 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105152 packages/chimerax/map/volume.py", line 1243, in
    105153 matrix_indices_to_xyz_transform 
    105154 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105155 File
    105156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105157 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105158 r = self.subregion(step, subregion) 
    105159 File
    105160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105161 packages/chimerax/map/volume.py", line 1558, in subregion 
    105162 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105163 AttributeError: 'NoneType' object has no attribute 'size' 
    105164  
    105165 AttributeError: 'NoneType' object has no attribute 'size' 
    105166  
    105167 File
    105168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105169 packages/chimerax/map/volume.py", line 1558, in subregion 
    105170 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105171  
    105172 See log for complete Python traceback. 
    105173  
    105174 Traceback (most recent call last): 
    105175 File
    105176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105177 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105178 drew = self.draw_new_frame() 
    105179 File
    105180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105181 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105182 surface.update_clip_caps(view) 
    105183 File
    105184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105185 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105186 subdivision = settings.clipping_cap_subdivision) 
    105187 File
    105188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105189 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105190 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105191 File
    105192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105193 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105194 cm.set_geometry(varray, narray, tarray) 
    105195 File
    105196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105197 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105198 arv() 
    105199 File
    105200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105201 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105202 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105203 File
    105204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105205 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105206 s.vertex_colors = self.vertex_colors(report_stats) 
    105207 File
    105208 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105209 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105210 values, outside = self.volume_values() 
    105211 File
    105212 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105213 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105214 return self.offset_values(v, n, tf) 
    105215 File
    105216 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105217 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105218 values, outside = self.vertex_values(v, xf) 
    105219 File
    105220 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105221 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105222 out_of_bounds_list = True) 
    105223 File
    105224 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105225 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105226 subregion, step) 
    105227 File
    105228 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105229 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105230 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105231 File
    105232 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105233 packages/chimerax/map/volume.py", line 1243, in
    105234 matrix_indices_to_xyz_transform 
    105235 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105236 File
    105237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105238 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105239 r = self.subregion(step, subregion) 
    105240 File
    105241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105242 packages/chimerax/map/volume.py", line 1558, in subregion 
    105243 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105244 AttributeError: 'NoneType' object has no attribute 'size' 
    105245  
    105246 AttributeError: 'NoneType' object has no attribute 'size' 
    105247  
    105248 File
    105249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105250 packages/chimerax/map/volume.py", line 1558, in subregion 
    105251 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105252  
    105253 See log for complete Python traceback. 
    105254  
    105255 Traceback (most recent call last): 
    105256 File
    105257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105258 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105259 drew = self.draw_new_frame() 
    105260 File
    105261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105262 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105263 surface.update_clip_caps(view) 
    105264 File
    105265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105266 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105267 subdivision = settings.clipping_cap_subdivision) 
    105268 File
    105269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105270 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105271 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105272 File
    105273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105274 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105275 cm.set_geometry(varray, narray, tarray) 
    105276 File
    105277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105278 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105279 arv() 
    105280 File
    105281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105282 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105283 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105284 File
    105285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105286 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105287 s.vertex_colors = self.vertex_colors(report_stats) 
    105288 File
    105289 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105290 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105291 values, outside = self.volume_values() 
    105292 File
    105293 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105294 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105295 return self.offset_values(v, n, tf) 
    105296 File
    105297 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105298 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105299 values, outside = self.vertex_values(v, xf) 
    105300 File
    105301 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105302 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105303 out_of_bounds_list = True) 
    105304 File
    105305 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105306 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105307 subregion, step) 
    105308 File
    105309 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105310 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105311 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105312 File
    105313 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105314 packages/chimerax/map/volume.py", line 1243, in
    105315 matrix_indices_to_xyz_transform 
    105316 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105317 File
    105318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105319 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105320 r = self.subregion(step, subregion) 
    105321 File
    105322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105323 packages/chimerax/map/volume.py", line 1558, in subregion 
    105324 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105325 AttributeError: 'NoneType' object has no attribute 'size' 
    105326  
    105327 AttributeError: 'NoneType' object has no attribute 'size' 
    105328  
    105329 File
    105330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105331 packages/chimerax/map/volume.py", line 1558, in subregion 
    105332 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105333  
    105334 See log for complete Python traceback. 
    105335  
    105336 Traceback (most recent call last): 
    105337 File
    105338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105339 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105340 drew = self.draw_new_frame() 
    105341 File
    105342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105343 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105344 surface.update_clip_caps(view) 
    105345 File
    105346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105347 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105348 subdivision = settings.clipping_cap_subdivision) 
    105349 File
    105350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105351 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105352 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105353 File
    105354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105355 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105356 cm.set_geometry(varray, narray, tarray) 
    105357 File
    105358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105359 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105360 arv() 
    105361 File
    105362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105363 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105364 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105365 File
    105366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105367 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105368 s.vertex_colors = self.vertex_colors(report_stats) 
    105369 File
    105370 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105371 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105372 values, outside = self.volume_values() 
    105373 File
    105374 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105375 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105376 return self.offset_values(v, n, tf) 
    105377 File
    105378 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105379 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105380 values, outside = self.vertex_values(v, xf) 
    105381 File
    105382 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105383 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105384 out_of_bounds_list = True) 
    105385 File
    105386 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105387 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105388 subregion, step) 
    105389 File
    105390 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105391 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105392 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105393 File
    105394 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105395 packages/chimerax/map/volume.py", line 1243, in
    105396 matrix_indices_to_xyz_transform 
    105397 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105398 File
    105399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105400 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105401 r = self.subregion(step, subregion) 
    105402 File
    105403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105404 packages/chimerax/map/volume.py", line 1558, in subregion 
    105405 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105406 AttributeError: 'NoneType' object has no attribute 'size' 
    105407  
    105408 AttributeError: 'NoneType' object has no attribute 'size' 
    105409  
    105410 File
    105411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105412 packages/chimerax/map/volume.py", line 1558, in subregion 
    105413 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105414  
    105415 See log for complete Python traceback. 
    105416  
    105417 Traceback (most recent call last): 
    105418 File
    105419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105420 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105421 drew = self.draw_new_frame() 
    105422 File
    105423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105424 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105425 surface.update_clip_caps(view) 
    105426 File
    105427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105428 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105429 subdivision = settings.clipping_cap_subdivision) 
    105430 File
    105431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105432 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105433 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105434 File
    105435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105436 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105437 cm.set_geometry(varray, narray, tarray) 
    105438 File
    105439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105440 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105441 arv() 
    105442 File
    105443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105444 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105445 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105446 File
    105447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105448 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105449 s.vertex_colors = self.vertex_colors(report_stats) 
    105450 File
    105451 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105452 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105453 values, outside = self.volume_values() 
    105454 File
    105455 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105456 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105457 return self.offset_values(v, n, tf) 
    105458 File
    105459 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105460 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105461 values, outside = self.vertex_values(v, xf) 
    105462 File
    105463 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105464 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105465 out_of_bounds_list = True) 
    105466 File
    105467 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105468 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105469 subregion, step) 
    105470 File
    105471 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105472 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105473 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105474 File
    105475 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105476 packages/chimerax/map/volume.py", line 1243, in
    105477 matrix_indices_to_xyz_transform 
    105478 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105479 File
    105480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105481 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105482 r = self.subregion(step, subregion) 
    105483 File
    105484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105485 packages/chimerax/map/volume.py", line 1558, in subregion 
    105486 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105487 AttributeError: 'NoneType' object has no attribute 'size' 
    105488  
    105489 AttributeError: 'NoneType' object has no attribute 'size' 
    105490  
    105491 File
    105492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105493 packages/chimerax/map/volume.py", line 1558, in subregion 
    105494 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105495  
    105496 See log for complete Python traceback. 
    105497  
    105498 Traceback (most recent call last): 
    105499 File
    105500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105501 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105502 drew = self.draw_new_frame() 
    105503 File
    105504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105505 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105506 surface.update_clip_caps(view) 
    105507 File
    105508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105509 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105510 subdivision = settings.clipping_cap_subdivision) 
    105511 File
    105512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105513 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105514 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105515 File
    105516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105517 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105518 cm.set_geometry(varray, narray, tarray) 
    105519 File
    105520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105521 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105522 arv() 
    105523 File
    105524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105525 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105526 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105527 File
    105528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105529 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105530 s.vertex_colors = self.vertex_colors(report_stats) 
    105531 File
    105532 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105533 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105534 values, outside = self.volume_values() 
    105535 File
    105536 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105537 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105538 return self.offset_values(v, n, tf) 
    105539 File
    105540 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105541 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105542 values, outside = self.vertex_values(v, xf) 
    105543 File
    105544 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105545 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105546 out_of_bounds_list = True) 
    105547 File
    105548 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105549 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105550 subregion, step) 
    105551 File
    105552 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105553 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105554 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105555 File
    105556 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105557 packages/chimerax/map/volume.py", line 1243, in
    105558 matrix_indices_to_xyz_transform 
    105559 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105560 File
    105561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105562 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105563 r = self.subregion(step, subregion) 
    105564 File
    105565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105566 packages/chimerax/map/volume.py", line 1558, in subregion 
    105567 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105568 AttributeError: 'NoneType' object has no attribute 'size' 
    105569  
    105570 AttributeError: 'NoneType' object has no attribute 'size' 
    105571  
    105572 File
    105573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105574 packages/chimerax/map/volume.py", line 1558, in subregion 
    105575 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105576  
    105577 See log for complete Python traceback. 
    105578  
    105579 Traceback (most recent call last): 
    105580 File
    105581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105582 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105583 drew = self.draw_new_frame() 
    105584 File
    105585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105586 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105587 surface.update_clip_caps(view) 
    105588 File
    105589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105590 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105591 subdivision = settings.clipping_cap_subdivision) 
    105592 File
    105593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105594 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105595 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105596 File
    105597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105598 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105599 cm.set_geometry(varray, narray, tarray) 
    105600 File
    105601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105602 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105603 arv() 
    105604 File
    105605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105606 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105607 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105608 File
    105609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105610 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105611 s.vertex_colors = self.vertex_colors(report_stats) 
    105612 File
    105613 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105614 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105615 values, outside = self.volume_values() 
    105616 File
    105617 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105618 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105619 return self.offset_values(v, n, tf) 
    105620 File
    105621 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105622 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105623 values, outside = self.vertex_values(v, xf) 
    105624 File
    105625 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105626 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105627 out_of_bounds_list = True) 
    105628 File
    105629 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105630 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105631 subregion, step) 
    105632 File
    105633 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105634 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105635 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105636 File
    105637 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105638 packages/chimerax/map/volume.py", line 1243, in
    105639 matrix_indices_to_xyz_transform 
    105640 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105641 File
    105642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105643 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105644 r = self.subregion(step, subregion) 
    105645 File
    105646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105647 packages/chimerax/map/volume.py", line 1558, in subregion 
    105648 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105649 AttributeError: 'NoneType' object has no attribute 'size' 
    105650  
    105651 AttributeError: 'NoneType' object has no attribute 'size' 
    105652  
    105653 File
    105654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105655 packages/chimerax/map/volume.py", line 1558, in subregion 
    105656 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105657  
    105658 See log for complete Python traceback. 
    105659  
    105660 Traceback (most recent call last): 
    105661 File
    105662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105663 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105664 drew = self.draw_new_frame() 
    105665 File
    105666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105667 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105668 surface.update_clip_caps(view) 
    105669 File
    105670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105671 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105672 subdivision = settings.clipping_cap_subdivision) 
    105673 File
    105674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105675 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105676 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105677 File
    105678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105679 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105680 cm.set_geometry(varray, narray, tarray) 
    105681 File
    105682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105683 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105684 arv() 
    105685 File
    105686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105687 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105688 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105689 File
    105690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105691 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105692 s.vertex_colors = self.vertex_colors(report_stats) 
    105693 File
    105694 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105695 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105696 values, outside = self.volume_values() 
    105697 File
    105698 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105699 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105700 return self.offset_values(v, n, tf) 
    105701 File
    105702 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105703 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105704 values, outside = self.vertex_values(v, xf) 
    105705 File
    105706 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105707 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105708 out_of_bounds_list = True) 
    105709 File
    105710 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105711 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105712 subregion, step) 
    105713 File
    105714 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105715 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105716 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105717 File
    105718 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105719 packages/chimerax/map/volume.py", line 1243, in
    105720 matrix_indices_to_xyz_transform 
    105721 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105722 File
    105723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105724 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105725 r = self.subregion(step, subregion) 
    105726 File
    105727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105728 packages/chimerax/map/volume.py", line 1558, in subregion 
    105729 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105730 AttributeError: 'NoneType' object has no attribute 'size' 
    105731  
    105732 AttributeError: 'NoneType' object has no attribute 'size' 
    105733  
    105734 File
    105735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105736 packages/chimerax/map/volume.py", line 1558, in subregion 
    105737 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105738  
    105739 See log for complete Python traceback. 
    105740  
    105741 Traceback (most recent call last): 
    105742 File
    105743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105744 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105745 drew = self.draw_new_frame() 
    105746 File
    105747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105748 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105749 surface.update_clip_caps(view) 
    105750 File
    105751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105752 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105753 subdivision = settings.clipping_cap_subdivision) 
    105754 File
    105755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105756 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105757 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105758 File
    105759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105760 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105761 cm.set_geometry(varray, narray, tarray) 
    105762 File
    105763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105764 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105765 arv() 
    105766 File
    105767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105768 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105769 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105770 File
    105771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105772 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105773 s.vertex_colors = self.vertex_colors(report_stats) 
    105774 File
    105775 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105776 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105777 values, outside = self.volume_values() 
    105778 File
    105779 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105780 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105781 return self.offset_values(v, n, tf) 
    105782 File
    105783 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105784 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105785 values, outside = self.vertex_values(v, xf) 
    105786 File
    105787 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105788 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105789 out_of_bounds_list = True) 
    105790 File
    105791 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105792 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105793 subregion, step) 
    105794 File
    105795 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105796 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105797 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105798 File
    105799 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105800 packages/chimerax/map/volume.py", line 1243, in
    105801 matrix_indices_to_xyz_transform 
    105802 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105803 File
    105804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105805 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105806 r = self.subregion(step, subregion) 
    105807 File
    105808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105809 packages/chimerax/map/volume.py", line 1558, in subregion 
    105810 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105811 AttributeError: 'NoneType' object has no attribute 'size' 
    105812  
    105813 AttributeError: 'NoneType' object has no attribute 'size' 
    105814  
    105815 File
    105816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105817 packages/chimerax/map/volume.py", line 1558, in subregion 
    105818 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105819  
    105820 See log for complete Python traceback. 
    105821  
    105822 Traceback (most recent call last): 
    105823 File
    105824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105825 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105826 drew = self.draw_new_frame() 
    105827 File
    105828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105829 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105830 surface.update_clip_caps(view) 
    105831 File
    105832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105833 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105834 subdivision = settings.clipping_cap_subdivision) 
    105835 File
    105836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105837 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105838 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105839 File
    105840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105841 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105842 cm.set_geometry(varray, narray, tarray) 
    105843 File
    105844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105845 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105846 arv() 
    105847 File
    105848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105849 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105850 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105851 File
    105852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105853 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105854 s.vertex_colors = self.vertex_colors(report_stats) 
    105855 File
    105856 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105857 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105858 values, outside = self.volume_values() 
    105859 File
    105860 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105861 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105862 return self.offset_values(v, n, tf) 
    105863 File
    105864 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105865 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105866 values, outside = self.vertex_values(v, xf) 
    105867 File
    105868 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105869 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105870 out_of_bounds_list = True) 
    105871 File
    105872 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105873 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105874 subregion, step) 
    105875 File
    105876 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105877 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105878 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105879 File
    105880 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105881 packages/chimerax/map/volume.py", line 1243, in
    105882 matrix_indices_to_xyz_transform 
    105883 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105884 File
    105885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105886 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105887 r = self.subregion(step, subregion) 
    105888 File
    105889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105890 packages/chimerax/map/volume.py", line 1558, in subregion 
    105891 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105892 AttributeError: 'NoneType' object has no attribute 'size' 
    105893  
    105894 AttributeError: 'NoneType' object has no attribute 'size' 
    105895  
    105896 File
    105897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105898 packages/chimerax/map/volume.py", line 1558, in subregion 
    105899 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105900  
    105901 See log for complete Python traceback. 
    105902  
    105903 Traceback (most recent call last): 
    105904 File
    105905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105906 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105907 drew = self.draw_new_frame() 
    105908 File
    105909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105910 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105911 surface.update_clip_caps(view) 
    105912 File
    105913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105914 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105915 subdivision = settings.clipping_cap_subdivision) 
    105916 File
    105917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105918 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    105919 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    105920 File
    105921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105922 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    105923 cm.set_geometry(varray, narray, tarray) 
    105924 File
    105925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105926 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    105927 arv() 
    105928 File
    105929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105930 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    105931 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    105932 File
    105933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105934 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    105935 s.vertex_colors = self.vertex_colors(report_stats) 
    105936 File
    105937 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105938 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    105939 values, outside = self.volume_values() 
    105940 File
    105941 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105942 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    105943 return self.offset_values(v, n, tf) 
    105944 File
    105945 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105946 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    105947 values, outside = self.vertex_values(v, xf) 
    105948 File
    105949 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105950 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    105951 out_of_bounds_list = True) 
    105952 File
    105953 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105954 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    105955 subregion, step) 
    105956 File
    105957 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105958 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    105959 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    105960 File
    105961 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105962 packages/chimerax/map/volume.py", line 1243, in
    105963 matrix_indices_to_xyz_transform 
    105964 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    105965 File
    105966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105967 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    105968 r = self.subregion(step, subregion) 
    105969 File
    105970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105971 packages/chimerax/map/volume.py", line 1558, in subregion 
    105972 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105973 AttributeError: 'NoneType' object has no attribute 'size' 
    105974  
    105975 AttributeError: 'NoneType' object has no attribute 'size' 
    105976  
    105977 File
    105978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105979 packages/chimerax/map/volume.py", line 1558, in subregion 
    105980 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    105981  
    105982 See log for complete Python traceback. 
    105983  
    105984 Traceback (most recent call last): 
    105985 File
    105986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105987 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    105988 drew = self.draw_new_frame() 
    105989 File
    105990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105991 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    105992 surface.update_clip_caps(view) 
    105993 File
    105994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105995 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    105996 subdivision = settings.clipping_cap_subdivision) 
    105997 File
    105998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    105999 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106000 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106001 File
    106002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106003 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106004 cm.set_geometry(varray, narray, tarray) 
    106005 File
    106006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106007 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106008 arv() 
    106009 File
    106010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106011 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106012 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106013 File
    106014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106015 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106016 s.vertex_colors = self.vertex_colors(report_stats) 
    106017 File
    106018 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106019 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106020 values, outside = self.volume_values() 
    106021 File
    106022 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106023 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106024 return self.offset_values(v, n, tf) 
    106025 File
    106026 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106027 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106028 values, outside = self.vertex_values(v, xf) 
    106029 File
    106030 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106031 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106032 out_of_bounds_list = True) 
    106033 File
    106034 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106035 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106036 subregion, step) 
    106037 File
    106038 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106039 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106040 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106041 File
    106042 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106043 packages/chimerax/map/volume.py", line 1243, in
    106044 matrix_indices_to_xyz_transform 
    106045 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106046 File
    106047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106048 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106049 r = self.subregion(step, subregion) 
    106050 File
    106051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106052 packages/chimerax/map/volume.py", line 1558, in subregion 
    106053 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106054 AttributeError: 'NoneType' object has no attribute 'size' 
    106055  
    106056 AttributeError: 'NoneType' object has no attribute 'size' 
    106057  
    106058 File
    106059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106060 packages/chimerax/map/volume.py", line 1558, in subregion 
    106061 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106062  
    106063 See log for complete Python traceback. 
    106064  
    106065 Traceback (most recent call last): 
    106066 File
    106067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106068 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106069 drew = self.draw_new_frame() 
    106070 File
    106071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106072 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106073 surface.update_clip_caps(view) 
    106074 File
    106075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106076 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106077 subdivision = settings.clipping_cap_subdivision) 
    106078 File
    106079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106080 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106081 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106082 File
    106083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106084 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106085 cm.set_geometry(varray, narray, tarray) 
    106086 File
    106087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106088 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106089 arv() 
    106090 File
    106091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106092 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106093 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106094 File
    106095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106096 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106097 s.vertex_colors = self.vertex_colors(report_stats) 
    106098 File
    106099 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106100 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106101 values, outside = self.volume_values() 
    106102 File
    106103 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106104 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106105 return self.offset_values(v, n, tf) 
    106106 File
    106107 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106108 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106109 values, outside = self.vertex_values(v, xf) 
    106110 File
    106111 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106112 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106113 out_of_bounds_list = True) 
    106114 File
    106115 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106116 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106117 subregion, step) 
    106118 File
    106119 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106120 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106121 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106122 File
    106123 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106124 packages/chimerax/map/volume.py", line 1243, in
    106125 matrix_indices_to_xyz_transform 
    106126 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106127 File
    106128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106129 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106130 r = self.subregion(step, subregion) 
    106131 File
    106132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106133 packages/chimerax/map/volume.py", line 1558, in subregion 
    106134 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106135 AttributeError: 'NoneType' object has no attribute 'size' 
    106136  
    106137 AttributeError: 'NoneType' object has no attribute 'size' 
    106138  
    106139 File
    106140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106141 packages/chimerax/map/volume.py", line 1558, in subregion 
    106142 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106143  
    106144 See log for complete Python traceback. 
    106145  
    106146 Traceback (most recent call last): 
    106147 File
    106148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106149 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106150 drew = self.draw_new_frame() 
    106151 File
    106152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106153 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106154 surface.update_clip_caps(view) 
    106155 File
    106156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106157 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106158 subdivision = settings.clipping_cap_subdivision) 
    106159 File
    106160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106161 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106162 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106163 File
    106164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106165 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106166 cm.set_geometry(varray, narray, tarray) 
    106167 File
    106168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106169 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106170 arv() 
    106171 File
    106172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106173 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106174 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106175 File
    106176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106177 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106178 s.vertex_colors = self.vertex_colors(report_stats) 
    106179 File
    106180 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106181 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106182 values, outside = self.volume_values() 
    106183 File
    106184 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106185 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106186 return self.offset_values(v, n, tf) 
    106187 File
    106188 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106189 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106190 values, outside = self.vertex_values(v, xf) 
    106191 File
    106192 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106193 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106194 out_of_bounds_list = True) 
    106195 File
    106196 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106197 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106198 subregion, step) 
    106199 File
    106200 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106201 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106202 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106203 File
    106204 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106205 packages/chimerax/map/volume.py", line 1243, in
    106206 matrix_indices_to_xyz_transform 
    106207 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106208 File
    106209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106210 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106211 r = self.subregion(step, subregion) 
    106212 File
    106213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106214 packages/chimerax/map/volume.py", line 1558, in subregion 
    106215 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106216 AttributeError: 'NoneType' object has no attribute 'size' 
    106217  
    106218 AttributeError: 'NoneType' object has no attribute 'size' 
    106219  
    106220 File
    106221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106222 packages/chimerax/map/volume.py", line 1558, in subregion 
    106223 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106224  
    106225 See log for complete Python traceback. 
    106226  
    106227 Traceback (most recent call last): 
    106228 File
    106229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106230 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106231 drew = self.draw_new_frame() 
    106232 File
    106233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106234 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106235 surface.update_clip_caps(view) 
    106236 File
    106237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106238 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106239 subdivision = settings.clipping_cap_subdivision) 
    106240 File
    106241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106242 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106243 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106244 File
    106245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106246 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106247 cm.set_geometry(varray, narray, tarray) 
    106248 File
    106249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106250 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106251 arv() 
    106252 File
    106253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106254 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106255 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106256 File
    106257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106258 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106259 s.vertex_colors = self.vertex_colors(report_stats) 
    106260 File
    106261 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106262 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106263 values, outside = self.volume_values() 
    106264 File
    106265 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106266 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106267 return self.offset_values(v, n, tf) 
    106268 File
    106269 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106270 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106271 values, outside = self.vertex_values(v, xf) 
    106272 File
    106273 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106274 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106275 out_of_bounds_list = True) 
    106276 File
    106277 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106278 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106279 subregion, step) 
    106280 File
    106281 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106282 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106283 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106284 File
    106285 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106286 packages/chimerax/map/volume.py", line 1243, in
    106287 matrix_indices_to_xyz_transform 
    106288 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106289 File
    106290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106291 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106292 r = self.subregion(step, subregion) 
    106293 File
    106294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106295 packages/chimerax/map/volume.py", line 1558, in subregion 
    106296 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106297 AttributeError: 'NoneType' object has no attribute 'size' 
    106298  
    106299 AttributeError: 'NoneType' object has no attribute 'size' 
    106300  
    106301 File
    106302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106303 packages/chimerax/map/volume.py", line 1558, in subregion 
    106304 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106305  
    106306 See log for complete Python traceback. 
    106307  
    106308 Traceback (most recent call last): 
    106309 File
    106310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106311 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106312 drew = self.draw_new_frame() 
    106313 File
    106314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106315 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106316 surface.update_clip_caps(view) 
    106317 File
    106318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106319 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106320 subdivision = settings.clipping_cap_subdivision) 
    106321 File
    106322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106323 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106324 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106325 File
    106326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106327 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106328 cm.set_geometry(varray, narray, tarray) 
    106329 File
    106330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106331 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106332 arv() 
    106333 File
    106334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106335 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106336 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106337 File
    106338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106339 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106340 s.vertex_colors = self.vertex_colors(report_stats) 
    106341 File
    106342 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106343 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106344 values, outside = self.volume_values() 
    106345 File
    106346 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106347 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106348 return self.offset_values(v, n, tf) 
    106349 File
    106350 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106351 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106352 values, outside = self.vertex_values(v, xf) 
    106353 File
    106354 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106355 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106356 out_of_bounds_list = True) 
    106357 File
    106358 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106359 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106360 subregion, step) 
    106361 File
    106362 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106363 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106364 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106365 File
    106366 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106367 packages/chimerax/map/volume.py", line 1243, in
    106368 matrix_indices_to_xyz_transform 
    106369 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106370 File
    106371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106372 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106373 r = self.subregion(step, subregion) 
    106374 File
    106375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106376 packages/chimerax/map/volume.py", line 1558, in subregion 
    106377 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106378 AttributeError: 'NoneType' object has no attribute 'size' 
    106379  
    106380 AttributeError: 'NoneType' object has no attribute 'size' 
    106381  
    106382 File
    106383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106384 packages/chimerax/map/volume.py", line 1558, in subregion 
    106385 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106386  
    106387 See log for complete Python traceback. 
    106388  
    106389 Traceback (most recent call last): 
    106390 File
    106391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106392 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106393 drew = self.draw_new_frame() 
    106394 File
    106395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106396 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106397 surface.update_clip_caps(view) 
    106398 File
    106399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106400 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106401 subdivision = settings.clipping_cap_subdivision) 
    106402 File
    106403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106404 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106405 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106406 File
    106407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106408 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106409 cm.set_geometry(varray, narray, tarray) 
    106410 File
    106411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106412 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106413 arv() 
    106414 File
    106415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106416 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106417 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106418 File
    106419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106420 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106421 s.vertex_colors = self.vertex_colors(report_stats) 
    106422 File
    106423 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106424 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106425 values, outside = self.volume_values() 
    106426 File
    106427 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106428 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106429 return self.offset_values(v, n, tf) 
    106430 File
    106431 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106432 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106433 values, outside = self.vertex_values(v, xf) 
    106434 File
    106435 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106436 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106437 out_of_bounds_list = True) 
    106438 File
    106439 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106440 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106441 subregion, step) 
    106442 File
    106443 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106444 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106445 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106446 File
    106447 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106448 packages/chimerax/map/volume.py", line 1243, in
    106449 matrix_indices_to_xyz_transform 
    106450 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106451 File
    106452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106453 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106454 r = self.subregion(step, subregion) 
    106455 File
    106456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106457 packages/chimerax/map/volume.py", line 1558, in subregion 
    106458 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106459 AttributeError: 'NoneType' object has no attribute 'size' 
    106460  
    106461 AttributeError: 'NoneType' object has no attribute 'size' 
    106462  
    106463 File
    106464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106465 packages/chimerax/map/volume.py", line 1558, in subregion 
    106466 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106467  
    106468 See log for complete Python traceback. 
    106469  
    106470 Traceback (most recent call last): 
    106471 File
    106472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106473 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106474 drew = self.draw_new_frame() 
    106475 File
    106476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106477 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106478 surface.update_clip_caps(view) 
    106479 File
    106480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106481 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106482 subdivision = settings.clipping_cap_subdivision) 
    106483 File
    106484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106485 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106486 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106487 File
    106488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106489 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106490 cm.set_geometry(varray, narray, tarray) 
    106491 File
    106492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106493 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106494 arv() 
    106495 File
    106496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106497 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106498 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106499 File
    106500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106501 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106502 s.vertex_colors = self.vertex_colors(report_stats) 
    106503 File
    106504 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106505 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106506 values, outside = self.volume_values() 
    106507 File
    106508 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106509 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106510 return self.offset_values(v, n, tf) 
    106511 File
    106512 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106513 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106514 values, outside = self.vertex_values(v, xf) 
    106515 File
    106516 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106517 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106518 out_of_bounds_list = True) 
    106519 File
    106520 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106521 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106522 subregion, step) 
    106523 File
    106524 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106525 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106526 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106527 File
    106528 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106529 packages/chimerax/map/volume.py", line 1243, in
    106530 matrix_indices_to_xyz_transform 
    106531 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106532 File
    106533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106534 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106535 r = self.subregion(step, subregion) 
    106536 File
    106537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106538 packages/chimerax/map/volume.py", line 1558, in subregion 
    106539 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106540 AttributeError: 'NoneType' object has no attribute 'size' 
    106541  
    106542 AttributeError: 'NoneType' object has no attribute 'size' 
    106543  
    106544 File
    106545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106546 packages/chimerax/map/volume.py", line 1558, in subregion 
    106547 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106548  
    106549 See log for complete Python traceback. 
    106550  
    106551 Traceback (most recent call last): 
    106552 File
    106553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106554 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106555 drew = self.draw_new_frame() 
    106556 File
    106557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106558 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106559 surface.update_clip_caps(view) 
    106560 File
    106561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106562 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106563 subdivision = settings.clipping_cap_subdivision) 
    106564 File
    106565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106566 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106567 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106568 File
    106569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106570 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106571 cm.set_geometry(varray, narray, tarray) 
    106572 File
    106573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106574 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106575 arv() 
    106576 File
    106577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106578 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106579 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106580 File
    106581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106582 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106583 s.vertex_colors = self.vertex_colors(report_stats) 
    106584 File
    106585 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106586 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106587 values, outside = self.volume_values() 
    106588 File
    106589 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106590 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106591 return self.offset_values(v, n, tf) 
    106592 File
    106593 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106594 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106595 values, outside = self.vertex_values(v, xf) 
    106596 File
    106597 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106598 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106599 out_of_bounds_list = True) 
    106600 File
    106601 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106602 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106603 subregion, step) 
    106604 File
    106605 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106606 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106607 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106608 File
    106609 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106610 packages/chimerax/map/volume.py", line 1243, in
    106611 matrix_indices_to_xyz_transform 
    106612 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106613 File
    106614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106615 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106616 r = self.subregion(step, subregion) 
    106617 File
    106618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106619 packages/chimerax/map/volume.py", line 1558, in subregion 
    106620 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106621 AttributeError: 'NoneType' object has no attribute 'size' 
    106622  
    106623 AttributeError: 'NoneType' object has no attribute 'size' 
    106624  
    106625 File
    106626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106627 packages/chimerax/map/volume.py", line 1558, in subregion 
    106628 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106629  
    106630 See log for complete Python traceback. 
    106631  
    106632 Traceback (most recent call last): 
    106633 File
    106634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106635 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106636 drew = self.draw_new_frame() 
    106637 File
    106638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106639 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106640 surface.update_clip_caps(view) 
    106641 File
    106642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106643 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106644 subdivision = settings.clipping_cap_subdivision) 
    106645 File
    106646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106647 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106648 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106649 File
    106650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106651 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106652 cm.set_geometry(varray, narray, tarray) 
    106653 File
    106654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106655 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106656 arv() 
    106657 File
    106658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106659 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106660 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106661 File
    106662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106663 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106664 s.vertex_colors = self.vertex_colors(report_stats) 
    106665 File
    106666 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106667 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106668 values, outside = self.volume_values() 
    106669 File
    106670 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106671 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106672 return self.offset_values(v, n, tf) 
    106673 File
    106674 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106675 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106676 values, outside = self.vertex_values(v, xf) 
    106677 File
    106678 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106679 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106680 out_of_bounds_list = True) 
    106681 File
    106682 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106683 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106684 subregion, step) 
    106685 File
    106686 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106687 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106688 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106689 File
    106690 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106691 packages/chimerax/map/volume.py", line 1243, in
    106692 matrix_indices_to_xyz_transform 
    106693 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106694 File
    106695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106696 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106697 r = self.subregion(step, subregion) 
    106698 File
    106699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106700 packages/chimerax/map/volume.py", line 1558, in subregion 
    106701 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106702 AttributeError: 'NoneType' object has no attribute 'size' 
    106703  
    106704 AttributeError: 'NoneType' object has no attribute 'size' 
    106705  
    106706 File
    106707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106708 packages/chimerax/map/volume.py", line 1558, in subregion 
    106709 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106710  
    106711 See log for complete Python traceback. 
    106712  
    106713 Traceback (most recent call last): 
    106714 File
    106715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106716 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106717 drew = self.draw_new_frame() 
    106718 File
    106719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106720 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106721 surface.update_clip_caps(view) 
    106722 File
    106723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106724 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106725 subdivision = settings.clipping_cap_subdivision) 
    106726 File
    106727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106728 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106729 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106730 File
    106731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106732 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106733 cm.set_geometry(varray, narray, tarray) 
    106734 File
    106735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106736 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106737 arv() 
    106738 File
    106739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106740 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106741 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106742 File
    106743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106744 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106745 s.vertex_colors = self.vertex_colors(report_stats) 
    106746 File
    106747 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106748 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106749 values, outside = self.volume_values() 
    106750 File
    106751 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106752 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106753 return self.offset_values(v, n, tf) 
    106754 File
    106755 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106756 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106757 values, outside = self.vertex_values(v, xf) 
    106758 File
    106759 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106760 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106761 out_of_bounds_list = True) 
    106762 File
    106763 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106764 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106765 subregion, step) 
    106766 File
    106767 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106768 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106769 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106770 File
    106771 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106772 packages/chimerax/map/volume.py", line 1243, in
    106773 matrix_indices_to_xyz_transform 
    106774 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106775 File
    106776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106777 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106778 r = self.subregion(step, subregion) 
    106779 File
    106780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106781 packages/chimerax/map/volume.py", line 1558, in subregion 
    106782 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106783 AttributeError: 'NoneType' object has no attribute 'size' 
    106784  
    106785 AttributeError: 'NoneType' object has no attribute 'size' 
    106786  
    106787 File
    106788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106789 packages/chimerax/map/volume.py", line 1558, in subregion 
    106790 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106791  
    106792 See log for complete Python traceback. 
    106793  
    106794 Traceback (most recent call last): 
    106795 File
    106796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106797 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106798 drew = self.draw_new_frame() 
    106799 File
    106800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106801 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106802 surface.update_clip_caps(view) 
    106803 File
    106804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106805 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106806 subdivision = settings.clipping_cap_subdivision) 
    106807 File
    106808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106809 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106810 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106811 File
    106812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106813 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106814 cm.set_geometry(varray, narray, tarray) 
    106815 File
    106816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106817 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106818 arv() 
    106819 File
    106820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106821 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106822 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106823 File
    106824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106825 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106826 s.vertex_colors = self.vertex_colors(report_stats) 
    106827 File
    106828 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106829 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106830 values, outside = self.volume_values() 
    106831 File
    106832 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106833 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106834 return self.offset_values(v, n, tf) 
    106835 File
    106836 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106837 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106838 values, outside = self.vertex_values(v, xf) 
    106839 File
    106840 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106841 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106842 out_of_bounds_list = True) 
    106843 File
    106844 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106845 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106846 subregion, step) 
    106847 File
    106848 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106849 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106850 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106851 File
    106852 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106853 packages/chimerax/map/volume.py", line 1243, in
    106854 matrix_indices_to_xyz_transform 
    106855 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106856 File
    106857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106858 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106859 r = self.subregion(step, subregion) 
    106860 File
    106861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106862 packages/chimerax/map/volume.py", line 1558, in subregion 
    106863 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106864 AttributeError: 'NoneType' object has no attribute 'size' 
    106865  
    106866 AttributeError: 'NoneType' object has no attribute 'size' 
    106867  
    106868 File
    106869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106870 packages/chimerax/map/volume.py", line 1558, in subregion 
    106871 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106872  
    106873 See log for complete Python traceback. 
    106874  
    106875 Traceback (most recent call last): 
    106876 File
    106877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106878 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106879 drew = self.draw_new_frame() 
    106880 File
    106881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106882 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106883 surface.update_clip_caps(view) 
    106884 File
    106885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106886 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106887 subdivision = settings.clipping_cap_subdivision) 
    106888 File
    106889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106890 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106891 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106892 File
    106893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106894 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106895 cm.set_geometry(varray, narray, tarray) 
    106896 File
    106897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106898 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106899 arv() 
    106900 File
    106901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106902 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106903 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106904 File
    106905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106906 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106907 s.vertex_colors = self.vertex_colors(report_stats) 
    106908 File
    106909 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106910 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106911 values, outside = self.volume_values() 
    106912 File
    106913 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106914 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106915 return self.offset_values(v, n, tf) 
    106916 File
    106917 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106918 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    106919 values, outside = self.vertex_values(v, xf) 
    106920 File
    106921 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106922 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    106923 out_of_bounds_list = True) 
    106924 File
    106925 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106926 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    106927 subregion, step) 
    106928 File
    106929 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106930 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    106931 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    106932 File
    106933 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106934 packages/chimerax/map/volume.py", line 1243, in
    106935 matrix_indices_to_xyz_transform 
    106936 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    106937 File
    106938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106939 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    106940 r = self.subregion(step, subregion) 
    106941 File
    106942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106943 packages/chimerax/map/volume.py", line 1558, in subregion 
    106944 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106945 AttributeError: 'NoneType' object has no attribute 'size' 
    106946  
    106947 AttributeError: 'NoneType' object has no attribute 'size' 
    106948  
    106949 File
    106950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106951 packages/chimerax/map/volume.py", line 1558, in subregion 
    106952 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    106953  
    106954 See log for complete Python traceback. 
    106955  
    106956 Traceback (most recent call last): 
    106957 File
    106958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106959 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    106960 drew = self.draw_new_frame() 
    106961 File
    106962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106963 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    106964 surface.update_clip_caps(view) 
    106965 File
    106966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106967 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    106968 subdivision = settings.clipping_cap_subdivision) 
    106969 File
    106970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106971 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    106972 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    106973 File
    106974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106975 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    106976 cm.set_geometry(varray, narray, tarray) 
    106977 File
    106978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106979 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    106980 arv() 
    106981 File
    106982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106983 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    106984 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    106985 File
    106986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106987 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    106988 s.vertex_colors = self.vertex_colors(report_stats) 
    106989 File
    106990 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106991 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    106992 values, outside = self.volume_values() 
    106993 File
    106994 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106995 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    106996 return self.offset_values(v, n, tf) 
    106997 File
    106998 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    106999 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107000 values, outside = self.vertex_values(v, xf) 
    107001 File
    107002 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107003 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107004 out_of_bounds_list = True) 
    107005 File
    107006 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107007 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107008 subregion, step) 
    107009 File
    107010 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107011 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107012 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107013 File
    107014 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107015 packages/chimerax/map/volume.py", line 1243, in
    107016 matrix_indices_to_xyz_transform 
    107017 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107018 File
    107019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107020 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107021 r = self.subregion(step, subregion) 
    107022 File
    107023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107024 packages/chimerax/map/volume.py", line 1558, in subregion 
    107025 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107026 AttributeError: 'NoneType' object has no attribute 'size' 
    107027  
    107028 AttributeError: 'NoneType' object has no attribute 'size' 
    107029  
    107030 File
    107031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107032 packages/chimerax/map/volume.py", line 1558, in subregion 
    107033 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107034  
    107035 See log for complete Python traceback. 
    107036  
    107037 Traceback (most recent call last): 
    107038 File
    107039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107040 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107041 drew = self.draw_new_frame() 
    107042 File
    107043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107044 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107045 surface.update_clip_caps(view) 
    107046 File
    107047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107048 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107049 subdivision = settings.clipping_cap_subdivision) 
    107050 File
    107051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107052 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107053 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107054 File
    107055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107056 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107057 cm.set_geometry(varray, narray, tarray) 
    107058 File
    107059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107060 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107061 arv() 
    107062 File
    107063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107064 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107065 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107066 File
    107067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107068 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107069 s.vertex_colors = self.vertex_colors(report_stats) 
    107070 File
    107071 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107072 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107073 values, outside = self.volume_values() 
    107074 File
    107075 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107076 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107077 return self.offset_values(v, n, tf) 
    107078 File
    107079 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107080 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107081 values, outside = self.vertex_values(v, xf) 
    107082 File
    107083 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107084 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107085 out_of_bounds_list = True) 
    107086 File
    107087 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107088 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107089 subregion, step) 
    107090 File
    107091 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107092 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107093 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107094 File
    107095 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107096 packages/chimerax/map/volume.py", line 1243, in
    107097 matrix_indices_to_xyz_transform 
    107098 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107099 File
    107100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107101 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107102 r = self.subregion(step, subregion) 
    107103 File
    107104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107105 packages/chimerax/map/volume.py", line 1558, in subregion 
    107106 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107107 AttributeError: 'NoneType' object has no attribute 'size' 
    107108  
    107109 AttributeError: 'NoneType' object has no attribute 'size' 
    107110  
    107111 File
    107112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107113 packages/chimerax/map/volume.py", line 1558, in subregion 
    107114 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107115  
    107116 See log for complete Python traceback. 
    107117  
    107118 Traceback (most recent call last): 
    107119 File
    107120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107121 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107122 drew = self.draw_new_frame() 
    107123 File
    107124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107125 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107126 surface.update_clip_caps(view) 
    107127 File
    107128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107129 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107130 subdivision = settings.clipping_cap_subdivision) 
    107131 File
    107132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107133 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107134 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107135 File
    107136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107137 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107138 cm.set_geometry(varray, narray, tarray) 
    107139 File
    107140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107141 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107142 arv() 
    107143 File
    107144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107145 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107146 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107147 File
    107148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107149 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107150 s.vertex_colors = self.vertex_colors(report_stats) 
    107151 File
    107152 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107153 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107154 values, outside = self.volume_values() 
    107155 File
    107156 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107157 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107158 return self.offset_values(v, n, tf) 
    107159 File
    107160 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107161 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107162 values, outside = self.vertex_values(v, xf) 
    107163 File
    107164 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107165 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107166 out_of_bounds_list = True) 
    107167 File
    107168 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107169 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107170 subregion, step) 
    107171 File
    107172 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107173 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107174 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107175 File
    107176 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107177 packages/chimerax/map/volume.py", line 1243, in
    107178 matrix_indices_to_xyz_transform 
    107179 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107180 File
    107181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107182 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107183 r = self.subregion(step, subregion) 
    107184 File
    107185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107186 packages/chimerax/map/volume.py", line 1558, in subregion 
    107187 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107188 AttributeError: 'NoneType' object has no attribute 'size' 
    107189  
    107190 AttributeError: 'NoneType' object has no attribute 'size' 
    107191  
    107192 File
    107193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107194 packages/chimerax/map/volume.py", line 1558, in subregion 
    107195 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107196  
    107197 See log for complete Python traceback. 
    107198  
    107199 Traceback (most recent call last): 
    107200 File
    107201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107202 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107203 drew = self.draw_new_frame() 
    107204 File
    107205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107206 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107207 surface.update_clip_caps(view) 
    107208 File
    107209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107210 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107211 subdivision = settings.clipping_cap_subdivision) 
    107212 File
    107213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107214 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107215 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107216 File
    107217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107218 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107219 cm.set_geometry(varray, narray, tarray) 
    107220 File
    107221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107222 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107223 arv() 
    107224 File
    107225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107226 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107227 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107228 File
    107229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107230 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107231 s.vertex_colors = self.vertex_colors(report_stats) 
    107232 File
    107233 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107234 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107235 values, outside = self.volume_values() 
    107236 File
    107237 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107238 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107239 return self.offset_values(v, n, tf) 
    107240 File
    107241 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107242 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107243 values, outside = self.vertex_values(v, xf) 
    107244 File
    107245 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107246 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107247 out_of_bounds_list = True) 
    107248 File
    107249 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107250 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107251 subregion, step) 
    107252 File
    107253 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107254 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107255 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107256 File
    107257 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107258 packages/chimerax/map/volume.py", line 1243, in
    107259 matrix_indices_to_xyz_transform 
    107260 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107261 File
    107262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107263 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107264 r = self.subregion(step, subregion) 
    107265 File
    107266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107267 packages/chimerax/map/volume.py", line 1558, in subregion 
    107268 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107269 AttributeError: 'NoneType' object has no attribute 'size' 
    107270  
    107271 AttributeError: 'NoneType' object has no attribute 'size' 
    107272  
    107273 File
    107274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107275 packages/chimerax/map/volume.py", line 1558, in subregion 
    107276 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107277  
    107278 See log for complete Python traceback. 
    107279  
    107280 Traceback (most recent call last): 
    107281 File
    107282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107283 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107284 drew = self.draw_new_frame() 
    107285 File
    107286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107287 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107288 surface.update_clip_caps(view) 
    107289 File
    107290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107291 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107292 subdivision = settings.clipping_cap_subdivision) 
    107293 File
    107294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107295 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107296 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107297 File
    107298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107299 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107300 cm.set_geometry(varray, narray, tarray) 
    107301 File
    107302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107303 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107304 arv() 
    107305 File
    107306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107307 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107308 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107309 File
    107310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107311 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107312 s.vertex_colors = self.vertex_colors(report_stats) 
    107313 File
    107314 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107315 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107316 values, outside = self.volume_values() 
    107317 File
    107318 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107319 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107320 return self.offset_values(v, n, tf) 
    107321 File
    107322 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107323 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107324 values, outside = self.vertex_values(v, xf) 
    107325 File
    107326 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107327 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107328 out_of_bounds_list = True) 
    107329 File
    107330 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107331 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107332 subregion, step) 
    107333 File
    107334 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107335 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107336 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107337 File
    107338 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107339 packages/chimerax/map/volume.py", line 1243, in
    107340 matrix_indices_to_xyz_transform 
    107341 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107342 File
    107343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107344 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107345 r = self.subregion(step, subregion) 
    107346 File
    107347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107348 packages/chimerax/map/volume.py", line 1558, in subregion 
    107349 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107350 AttributeError: 'NoneType' object has no attribute 'size' 
    107351  
    107352 AttributeError: 'NoneType' object has no attribute 'size' 
    107353  
    107354 File
    107355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107356 packages/chimerax/map/volume.py", line 1558, in subregion 
    107357 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107358  
    107359 See log for complete Python traceback. 
    107360  
    107361 Traceback (most recent call last): 
    107362 File
    107363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107364 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107365 drew = self.draw_new_frame() 
    107366 File
    107367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107368 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107369 surface.update_clip_caps(view) 
    107370 File
    107371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107372 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107373 subdivision = settings.clipping_cap_subdivision) 
    107374 File
    107375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107376 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107377 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107378 File
    107379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107380 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107381 cm.set_geometry(varray, narray, tarray) 
    107382 File
    107383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107384 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107385 arv() 
    107386 File
    107387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107388 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107389 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107390 File
    107391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107392 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107393 s.vertex_colors = self.vertex_colors(report_stats) 
    107394 File
    107395 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107396 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107397 values, outside = self.volume_values() 
    107398 File
    107399 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107400 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107401 return self.offset_values(v, n, tf) 
    107402 File
    107403 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107404 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107405 values, outside = self.vertex_values(v, xf) 
    107406 File
    107407 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107408 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107409 out_of_bounds_list = True) 
    107410 File
    107411 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107412 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107413 subregion, step) 
    107414 File
    107415 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107416 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107417 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107418 File
    107419 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107420 packages/chimerax/map/volume.py", line 1243, in
    107421 matrix_indices_to_xyz_transform 
    107422 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107423 File
    107424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107425 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107426 r = self.subregion(step, subregion) 
    107427 File
    107428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107429 packages/chimerax/map/volume.py", line 1558, in subregion 
    107430 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107431 AttributeError: 'NoneType' object has no attribute 'size' 
    107432  
    107433 AttributeError: 'NoneType' object has no attribute 'size' 
    107434  
    107435 File
    107436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107437 packages/chimerax/map/volume.py", line 1558, in subregion 
    107438 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107439  
    107440 See log for complete Python traceback. 
    107441  
    107442 Traceback (most recent call last): 
    107443 File
    107444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107445 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107446 drew = self.draw_new_frame() 
    107447 File
    107448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107449 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107450 surface.update_clip_caps(view) 
    107451 File
    107452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107453 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107454 subdivision = settings.clipping_cap_subdivision) 
    107455 File
    107456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107457 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107458 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107459 File
    107460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107461 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107462 cm.set_geometry(varray, narray, tarray) 
    107463 File
    107464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107465 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107466 arv() 
    107467 File
    107468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107469 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107470 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107471 File
    107472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107473 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107474 s.vertex_colors = self.vertex_colors(report_stats) 
    107475 File
    107476 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107477 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107478 values, outside = self.volume_values() 
    107479 File
    107480 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107481 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107482 return self.offset_values(v, n, tf) 
    107483 File
    107484 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107485 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107486 values, outside = self.vertex_values(v, xf) 
    107487 File
    107488 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107489 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107490 out_of_bounds_list = True) 
    107491 File
    107492 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107493 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107494 subregion, step) 
    107495 File
    107496 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107497 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107498 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107499 File
    107500 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107501 packages/chimerax/map/volume.py", line 1243, in
    107502 matrix_indices_to_xyz_transform 
    107503 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107504 File
    107505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107506 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107507 r = self.subregion(step, subregion) 
    107508 File
    107509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107510 packages/chimerax/map/volume.py", line 1558, in subregion 
    107511 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107512 AttributeError: 'NoneType' object has no attribute 'size' 
    107513  
    107514 AttributeError: 'NoneType' object has no attribute 'size' 
    107515  
    107516 File
    107517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107518 packages/chimerax/map/volume.py", line 1558, in subregion 
    107519 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107520  
    107521 See log for complete Python traceback. 
    107522  
    107523 Traceback (most recent call last): 
    107524 File
    107525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107526 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107527 drew = self.draw_new_frame() 
    107528 File
    107529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107530 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107531 surface.update_clip_caps(view) 
    107532 File
    107533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107534 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107535 subdivision = settings.clipping_cap_subdivision) 
    107536 File
    107537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107538 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107539 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107540 File
    107541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107542 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107543 cm.set_geometry(varray, narray, tarray) 
    107544 File
    107545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107546 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107547 arv() 
    107548 File
    107549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107550 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107551 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107552 File
    107553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107554 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107555 s.vertex_colors = self.vertex_colors(report_stats) 
    107556 File
    107557 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107558 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107559 values, outside = self.volume_values() 
    107560 File
    107561 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107562 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107563 return self.offset_values(v, n, tf) 
    107564 File
    107565 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107566 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107567 values, outside = self.vertex_values(v, xf) 
    107568 File
    107569 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107570 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107571 out_of_bounds_list = True) 
    107572 File
    107573 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107574 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107575 subregion, step) 
    107576 File
    107577 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107578 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107579 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107580 File
    107581 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107582 packages/chimerax/map/volume.py", line 1243, in
    107583 matrix_indices_to_xyz_transform 
    107584 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107585 File
    107586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107587 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107588 r = self.subregion(step, subregion) 
    107589 File
    107590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107591 packages/chimerax/map/volume.py", line 1558, in subregion 
    107592 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107593 AttributeError: 'NoneType' object has no attribute 'size' 
    107594  
    107595 AttributeError: 'NoneType' object has no attribute 'size' 
    107596  
    107597 File
    107598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107599 packages/chimerax/map/volume.py", line 1558, in subregion 
    107600 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107601  
    107602 See log for complete Python traceback. 
    107603  
    107604 Traceback (most recent call last): 
    107605 File
    107606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107607 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107608 drew = self.draw_new_frame() 
    107609 File
    107610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107611 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107612 surface.update_clip_caps(view) 
    107613 File
    107614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107615 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107616 subdivision = settings.clipping_cap_subdivision) 
    107617 File
    107618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107619 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107620 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107621 File
    107622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107623 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107624 cm.set_geometry(varray, narray, tarray) 
    107625 File
    107626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107627 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107628 arv() 
    107629 File
    107630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107631 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107632 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107633 File
    107634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107635 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107636 s.vertex_colors = self.vertex_colors(report_stats) 
    107637 File
    107638 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107639 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107640 values, outside = self.volume_values() 
    107641 File
    107642 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107643 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107644 return self.offset_values(v, n, tf) 
    107645 File
    107646 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107647 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107648 values, outside = self.vertex_values(v, xf) 
    107649 File
    107650 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107651 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107652 out_of_bounds_list = True) 
    107653 File
    107654 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107655 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107656 subregion, step) 
    107657 File
    107658 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107659 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107660 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107661 File
    107662 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107663 packages/chimerax/map/volume.py", line 1243, in
    107664 matrix_indices_to_xyz_transform 
    107665 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107666 File
    107667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107668 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107669 r = self.subregion(step, subregion) 
    107670 File
    107671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107672 packages/chimerax/map/volume.py", line 1558, in subregion 
    107673 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107674 AttributeError: 'NoneType' object has no attribute 'size' 
    107675  
    107676 AttributeError: 'NoneType' object has no attribute 'size' 
    107677  
    107678 File
    107679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107680 packages/chimerax/map/volume.py", line 1558, in subregion 
    107681 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107682  
    107683 See log for complete Python traceback. 
    107684  
    107685 Traceback (most recent call last): 
    107686 File
    107687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107688 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107689 drew = self.draw_new_frame() 
    107690 File
    107691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107692 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107693 surface.update_clip_caps(view) 
    107694 File
    107695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107696 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107697 subdivision = settings.clipping_cap_subdivision) 
    107698 File
    107699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107700 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107701 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107702 File
    107703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107704 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107705 cm.set_geometry(varray, narray, tarray) 
    107706 File
    107707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107708 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107709 arv() 
    107710 File
    107711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107712 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107713 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107714 File
    107715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107716 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107717 s.vertex_colors = self.vertex_colors(report_stats) 
    107718 File
    107719 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107720 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107721 values, outside = self.volume_values() 
    107722 File
    107723 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107724 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107725 return self.offset_values(v, n, tf) 
    107726 File
    107727 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107728 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107729 values, outside = self.vertex_values(v, xf) 
    107730 File
    107731 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107732 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107733 out_of_bounds_list = True) 
    107734 File
    107735 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107736 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107737 subregion, step) 
    107738 File
    107739 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107740 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107741 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107742 File
    107743 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107744 packages/chimerax/map/volume.py", line 1243, in
    107745 matrix_indices_to_xyz_transform 
    107746 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107747 File
    107748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107749 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107750 r = self.subregion(step, subregion) 
    107751 File
    107752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107753 packages/chimerax/map/volume.py", line 1558, in subregion 
    107754 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107755 AttributeError: 'NoneType' object has no attribute 'size' 
    107756  
    107757 AttributeError: 'NoneType' object has no attribute 'size' 
    107758  
    107759 File
    107760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107761 packages/chimerax/map/volume.py", line 1558, in subregion 
    107762 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107763  
    107764 See log for complete Python traceback. 
    107765  
    107766 Traceback (most recent call last): 
    107767 File
    107768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107769 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107770 drew = self.draw_new_frame() 
    107771 File
    107772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107773 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107774 surface.update_clip_caps(view) 
    107775 File
    107776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107777 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107778 subdivision = settings.clipping_cap_subdivision) 
    107779 File
    107780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107781 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107782 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107783 File
    107784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107785 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107786 cm.set_geometry(varray, narray, tarray) 
    107787 File
    107788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107789 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107790 arv() 
    107791 File
    107792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107793 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107794 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107795 File
    107796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107797 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107798 s.vertex_colors = self.vertex_colors(report_stats) 
    107799 File
    107800 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107801 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107802 values, outside = self.volume_values() 
    107803 File
    107804 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107805 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107806 return self.offset_values(v, n, tf) 
    107807 File
    107808 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107809 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107810 values, outside = self.vertex_values(v, xf) 
    107811 File
    107812 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107813 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107814 out_of_bounds_list = True) 
    107815 File
    107816 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107817 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107818 subregion, step) 
    107819 File
    107820 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107821 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107822 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107823 File
    107824 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107825 packages/chimerax/map/volume.py", line 1243, in
    107826 matrix_indices_to_xyz_transform 
    107827 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107828 File
    107829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107830 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107831 r = self.subregion(step, subregion) 
    107832 File
    107833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107834 packages/chimerax/map/volume.py", line 1558, in subregion 
    107835 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107836 AttributeError: 'NoneType' object has no attribute 'size' 
    107837  
    107838 AttributeError: 'NoneType' object has no attribute 'size' 
    107839  
    107840 File
    107841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107842 packages/chimerax/map/volume.py", line 1558, in subregion 
    107843 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107844  
    107845 See log for complete Python traceback. 
    107846  
    107847 Traceback (most recent call last): 
    107848 File
    107849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107850 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107851 drew = self.draw_new_frame() 
    107852 File
    107853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107854 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107855 surface.update_clip_caps(view) 
    107856 File
    107857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107858 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107859 subdivision = settings.clipping_cap_subdivision) 
    107860 File
    107861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107862 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107863 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107864 File
    107865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107866 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107867 cm.set_geometry(varray, narray, tarray) 
    107868 File
    107869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107870 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107871 arv() 
    107872 File
    107873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107874 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107875 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107876 File
    107877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107878 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107879 s.vertex_colors = self.vertex_colors(report_stats) 
    107880 File
    107881 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107882 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107883 values, outside = self.volume_values() 
    107884 File
    107885 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107886 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107887 return self.offset_values(v, n, tf) 
    107888 File
    107889 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107890 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107891 values, outside = self.vertex_values(v, xf) 
    107892 File
    107893 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107894 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107895 out_of_bounds_list = True) 
    107896 File
    107897 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107898 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107899 subregion, step) 
    107900 File
    107901 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107902 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107903 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107904 File
    107905 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107906 packages/chimerax/map/volume.py", line 1243, in
    107907 matrix_indices_to_xyz_transform 
    107908 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107909 File
    107910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107911 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107912 r = self.subregion(step, subregion) 
    107913 File
    107914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107915 packages/chimerax/map/volume.py", line 1558, in subregion 
    107916 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107917 AttributeError: 'NoneType' object has no attribute 'size' 
    107918  
    107919 AttributeError: 'NoneType' object has no attribute 'size' 
    107920  
    107921 File
    107922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107923 packages/chimerax/map/volume.py", line 1558, in subregion 
    107924 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107925  
    107926 See log for complete Python traceback. 
    107927  
    107928 Traceback (most recent call last): 
    107929 File
    107930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107931 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    107932 drew = self.draw_new_frame() 
    107933 File
    107934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107935 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    107936 surface.update_clip_caps(view) 
    107937 File
    107938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107939 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    107940 subdivision = settings.clipping_cap_subdivision) 
    107941 File
    107942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107943 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    107944 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    107945 File
    107946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107947 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    107948 cm.set_geometry(varray, narray, tarray) 
    107949 File
    107950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107951 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    107952 arv() 
    107953 File
    107954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107955 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    107956 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    107957 File
    107958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107959 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    107960 s.vertex_colors = self.vertex_colors(report_stats) 
    107961 File
    107962 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107963 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    107964 values, outside = self.volume_values() 
    107965 File
    107966 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107967 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    107968 return self.offset_values(v, n, tf) 
    107969 File
    107970 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107971 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    107972 values, outside = self.vertex_values(v, xf) 
    107973 File
    107974 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107975 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    107976 out_of_bounds_list = True) 
    107977 File
    107978 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107979 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    107980 subregion, step) 
    107981 File
    107982 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107983 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    107984 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    107985 File
    107986 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107987 packages/chimerax/map/volume.py", line 1243, in
    107988 matrix_indices_to_xyz_transform 
    107989 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    107990 File
    107991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107992 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    107993 r = self.subregion(step, subregion) 
    107994 File
    107995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    107996 packages/chimerax/map/volume.py", line 1558, in subregion 
    107997 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    107998 AttributeError: 'NoneType' object has no attribute 'size' 
    107999  
    108000 AttributeError: 'NoneType' object has no attribute 'size' 
    108001  
    108002 File
    108003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108004 packages/chimerax/map/volume.py", line 1558, in subregion 
    108005 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108006  
    108007 See log for complete Python traceback. 
    108008  
    108009 Traceback (most recent call last): 
    108010 File
    108011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108012 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108013 drew = self.draw_new_frame() 
    108014 File
    108015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108016 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108017 surface.update_clip_caps(view) 
    108018 File
    108019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108020 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108021 subdivision = settings.clipping_cap_subdivision) 
    108022 File
    108023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108024 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108025 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108026 File
    108027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108028 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108029 cm.set_geometry(varray, narray, tarray) 
    108030 File
    108031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108032 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108033 arv() 
    108034 File
    108035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108036 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108037 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108038 File
    108039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108040 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108041 s.vertex_colors = self.vertex_colors(report_stats) 
    108042 File
    108043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108044 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108045 values, outside = self.volume_values() 
    108046 File
    108047 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108048 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108049 return self.offset_values(v, n, tf) 
    108050 File
    108051 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108052 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108053 values, outside = self.vertex_values(v, xf) 
    108054 File
    108055 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108056 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108057 out_of_bounds_list = True) 
    108058 File
    108059 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108060 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108061 subregion, step) 
    108062 File
    108063 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108064 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108065 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108066 File
    108067 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108068 packages/chimerax/map/volume.py", line 1243, in
    108069 matrix_indices_to_xyz_transform 
    108070 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108071 File
    108072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108073 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108074 r = self.subregion(step, subregion) 
    108075 File
    108076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108077 packages/chimerax/map/volume.py", line 1558, in subregion 
    108078 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108079 AttributeError: 'NoneType' object has no attribute 'size' 
    108080  
    108081 AttributeError: 'NoneType' object has no attribute 'size' 
    108082  
    108083 File
    108084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108085 packages/chimerax/map/volume.py", line 1558, in subregion 
    108086 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108087  
    108088 See log for complete Python traceback. 
    108089  
    108090 Traceback (most recent call last): 
    108091 File
    108092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108093 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108094 drew = self.draw_new_frame() 
    108095 File
    108096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108097 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108098 surface.update_clip_caps(view) 
    108099 File
    108100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108101 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108102 subdivision = settings.clipping_cap_subdivision) 
    108103 File
    108104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108105 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108106 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108107 File
    108108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108109 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108110 cm.set_geometry(varray, narray, tarray) 
    108111 File
    108112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108113 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108114 arv() 
    108115 File
    108116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108117 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108118 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108119 File
    108120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108121 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108122 s.vertex_colors = self.vertex_colors(report_stats) 
    108123 File
    108124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108125 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108126 values, outside = self.volume_values() 
    108127 File
    108128 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108129 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108130 return self.offset_values(v, n, tf) 
    108131 File
    108132 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108133 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108134 values, outside = self.vertex_values(v, xf) 
    108135 File
    108136 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108137 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108138 out_of_bounds_list = True) 
    108139 File
    108140 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108141 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108142 subregion, step) 
    108143 File
    108144 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108145 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108146 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108147 File
    108148 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108149 packages/chimerax/map/volume.py", line 1243, in
    108150 matrix_indices_to_xyz_transform 
    108151 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108152 File
    108153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108154 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108155 r = self.subregion(step, subregion) 
    108156 File
    108157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108158 packages/chimerax/map/volume.py", line 1558, in subregion 
    108159 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108160 AttributeError: 'NoneType' object has no attribute 'size' 
    108161  
    108162 AttributeError: 'NoneType' object has no attribute 'size' 
    108163  
    108164 File
    108165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108166 packages/chimerax/map/volume.py", line 1558, in subregion 
    108167 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108168  
    108169 See log for complete Python traceback. 
    108170  
    108171 Traceback (most recent call last): 
    108172 File
    108173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108174 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108175 drew = self.draw_new_frame() 
    108176 File
    108177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108178 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108179 surface.update_clip_caps(view) 
    108180 File
    108181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108182 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108183 subdivision = settings.clipping_cap_subdivision) 
    108184 File
    108185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108186 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108187 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108188 File
    108189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108190 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108191 cm.set_geometry(varray, narray, tarray) 
    108192 File
    108193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108194 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108195 arv() 
    108196 File
    108197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108198 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108199 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108200 File
    108201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108202 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108203 s.vertex_colors = self.vertex_colors(report_stats) 
    108204 File
    108205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108206 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108207 values, outside = self.volume_values() 
    108208 File
    108209 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108210 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108211 return self.offset_values(v, n, tf) 
    108212 File
    108213 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108214 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108215 values, outside = self.vertex_values(v, xf) 
    108216 File
    108217 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108218 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108219 out_of_bounds_list = True) 
    108220 File
    108221 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108222 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108223 subregion, step) 
    108224 File
    108225 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108226 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108227 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108228 File
    108229 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108230 packages/chimerax/map/volume.py", line 1243, in
    108231 matrix_indices_to_xyz_transform 
    108232 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108233 File
    108234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108235 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108236 r = self.subregion(step, subregion) 
    108237 File
    108238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108239 packages/chimerax/map/volume.py", line 1558, in subregion 
    108240 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108241 AttributeError: 'NoneType' object has no attribute 'size' 
    108242  
    108243 AttributeError: 'NoneType' object has no attribute 'size' 
    108244  
    108245 File
    108246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108247 packages/chimerax/map/volume.py", line 1558, in subregion 
    108248 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108249  
    108250 See log for complete Python traceback. 
    108251  
    108252 Traceback (most recent call last): 
    108253 File
    108254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108255 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108256 drew = self.draw_new_frame() 
    108257 File
    108258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108259 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108260 surface.update_clip_caps(view) 
    108261 File
    108262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108263 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108264 subdivision = settings.clipping_cap_subdivision) 
    108265 File
    108266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108267 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108268 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108269 File
    108270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108271 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108272 cm.set_geometry(varray, narray, tarray) 
    108273 File
    108274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108275 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108276 arv() 
    108277 File
    108278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108279 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108280 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108281 File
    108282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108283 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108284 s.vertex_colors = self.vertex_colors(report_stats) 
    108285 File
    108286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108287 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108288 values, outside = self.volume_values() 
    108289 File
    108290 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108291 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108292 return self.offset_values(v, n, tf) 
    108293 File
    108294 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108295 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108296 values, outside = self.vertex_values(v, xf) 
    108297 File
    108298 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108299 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108300 out_of_bounds_list = True) 
    108301 File
    108302 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108303 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108304 subregion, step) 
    108305 File
    108306 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108307 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108308 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108309 File
    108310 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108311 packages/chimerax/map/volume.py", line 1243, in
    108312 matrix_indices_to_xyz_transform 
    108313 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108314 File
    108315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108316 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108317 r = self.subregion(step, subregion) 
    108318 File
    108319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108320 packages/chimerax/map/volume.py", line 1558, in subregion 
    108321 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108322 AttributeError: 'NoneType' object has no attribute 'size' 
    108323  
    108324 AttributeError: 'NoneType' object has no attribute 'size' 
    108325  
    108326 File
    108327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108328 packages/chimerax/map/volume.py", line 1558, in subregion 
    108329 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108330  
    108331 See log for complete Python traceback. 
    108332  
    108333 Traceback (most recent call last): 
    108334 File
    108335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108336 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108337 drew = self.draw_new_frame() 
    108338 File
    108339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108340 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108341 surface.update_clip_caps(view) 
    108342 File
    108343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108344 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108345 subdivision = settings.clipping_cap_subdivision) 
    108346 File
    108347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108348 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108349 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108350 File
    108351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108352 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108353 cm.set_geometry(varray, narray, tarray) 
    108354 File
    108355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108356 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108357 arv() 
    108358 File
    108359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108360 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108361 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108362 File
    108363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108364 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108365 s.vertex_colors = self.vertex_colors(report_stats) 
    108366 File
    108367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108368 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108369 values, outside = self.volume_values() 
    108370 File
    108371 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108372 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108373 return self.offset_values(v, n, tf) 
    108374 File
    108375 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108376 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108377 values, outside = self.vertex_values(v, xf) 
    108378 File
    108379 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108380 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108381 out_of_bounds_list = True) 
    108382 File
    108383 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108384 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108385 subregion, step) 
    108386 File
    108387 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108388 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108389 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108390 File
    108391 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108392 packages/chimerax/map/volume.py", line 1243, in
    108393 matrix_indices_to_xyz_transform 
    108394 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108395 File
    108396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108397 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108398 r = self.subregion(step, subregion) 
    108399 File
    108400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108401 packages/chimerax/map/volume.py", line 1558, in subregion 
    108402 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108403 AttributeError: 'NoneType' object has no attribute 'size' 
    108404  
    108405 AttributeError: 'NoneType' object has no attribute 'size' 
    108406  
    108407 File
    108408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108409 packages/chimerax/map/volume.py", line 1558, in subregion 
    108410 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108411  
    108412 See log for complete Python traceback. 
    108413  
    108414 Traceback (most recent call last): 
    108415 File
    108416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108417 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108418 drew = self.draw_new_frame() 
    108419 File
    108420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108421 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108422 surface.update_clip_caps(view) 
    108423 File
    108424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108425 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108426 subdivision = settings.clipping_cap_subdivision) 
    108427 File
    108428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108429 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108430 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108431 File
    108432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108433 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108434 cm.set_geometry(varray, narray, tarray) 
    108435 File
    108436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108437 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108438 arv() 
    108439 File
    108440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108441 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108442 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108443 File
    108444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108445 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108446 s.vertex_colors = self.vertex_colors(report_stats) 
    108447 File
    108448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108449 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108450 values, outside = self.volume_values() 
    108451 File
    108452 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108453 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108454 return self.offset_values(v, n, tf) 
    108455 File
    108456 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108457 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108458 values, outside = self.vertex_values(v, xf) 
    108459 File
    108460 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108461 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108462 out_of_bounds_list = True) 
    108463 File
    108464 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108465 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108466 subregion, step) 
    108467 File
    108468 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108469 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108470 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108471 File
    108472 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108473 packages/chimerax/map/volume.py", line 1243, in
    108474 matrix_indices_to_xyz_transform 
    108475 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108476 File
    108477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108478 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108479 r = self.subregion(step, subregion) 
    108480 File
    108481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108482 packages/chimerax/map/volume.py", line 1558, in subregion 
    108483 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108484 AttributeError: 'NoneType' object has no attribute 'size' 
    108485  
    108486 AttributeError: 'NoneType' object has no attribute 'size' 
    108487  
    108488 File
    108489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108490 packages/chimerax/map/volume.py", line 1558, in subregion 
    108491 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108492  
    108493 See log for complete Python traceback. 
    108494  
    108495 Traceback (most recent call last): 
    108496 File
    108497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108498 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108499 drew = self.draw_new_frame() 
    108500 File
    108501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108502 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108503 surface.update_clip_caps(view) 
    108504 File
    108505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108506 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108507 subdivision = settings.clipping_cap_subdivision) 
    108508 File
    108509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108510 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108511 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108512 File
    108513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108514 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108515 cm.set_geometry(varray, narray, tarray) 
    108516 File
    108517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108518 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108519 arv() 
    108520 File
    108521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108522 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108523 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108524 File
    108525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108526 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108527 s.vertex_colors = self.vertex_colors(report_stats) 
    108528 File
    108529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108530 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108531 values, outside = self.volume_values() 
    108532 File
    108533 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108534 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108535 return self.offset_values(v, n, tf) 
    108536 File
    108537 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108538 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108539 values, outside = self.vertex_values(v, xf) 
    108540 File
    108541 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108542 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108543 out_of_bounds_list = True) 
    108544 File
    108545 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108546 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108547 subregion, step) 
    108548 File
    108549 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108550 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108551 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108552 File
    108553 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108554 packages/chimerax/map/volume.py", line 1243, in
    108555 matrix_indices_to_xyz_transform 
    108556 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108557 File
    108558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108559 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108560 r = self.subregion(step, subregion) 
    108561 File
    108562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108563 packages/chimerax/map/volume.py", line 1558, in subregion 
    108564 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108565 AttributeError: 'NoneType' object has no attribute 'size' 
    108566  
    108567 AttributeError: 'NoneType' object has no attribute 'size' 
    108568  
    108569 File
    108570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108571 packages/chimerax/map/volume.py", line 1558, in subregion 
    108572 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108573  
    108574 See log for complete Python traceback. 
    108575  
    108576 Traceback (most recent call last): 
    108577 File
    108578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108579 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108580 drew = self.draw_new_frame() 
    108581 File
    108582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108583 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108584 surface.update_clip_caps(view) 
    108585 File
    108586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108587 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108588 subdivision = settings.clipping_cap_subdivision) 
    108589 File
    108590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108591 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108592 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108593 File
    108594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108595 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108596 cm.set_geometry(varray, narray, tarray) 
    108597 File
    108598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108599 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108600 arv() 
    108601 File
    108602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108603 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108604 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108605 File
    108606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108607 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108608 s.vertex_colors = self.vertex_colors(report_stats) 
    108609 File
    108610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108611 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108612 values, outside = self.volume_values() 
    108613 File
    108614 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108615 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108616 return self.offset_values(v, n, tf) 
    108617 File
    108618 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108619 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108620 values, outside = self.vertex_values(v, xf) 
    108621 File
    108622 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108623 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108624 out_of_bounds_list = True) 
    108625 File
    108626 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108627 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108628 subregion, step) 
    108629 File
    108630 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108631 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108632 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108633 File
    108634 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108635 packages/chimerax/map/volume.py", line 1243, in
    108636 matrix_indices_to_xyz_transform 
    108637 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108638 File
    108639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108640 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108641 r = self.subregion(step, subregion) 
    108642 File
    108643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108644 packages/chimerax/map/volume.py", line 1558, in subregion 
    108645 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108646 AttributeError: 'NoneType' object has no attribute 'size' 
    108647  
    108648 AttributeError: 'NoneType' object has no attribute 'size' 
    108649  
    108650 File
    108651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108652 packages/chimerax/map/volume.py", line 1558, in subregion 
    108653 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108654  
    108655 See log for complete Python traceback. 
    108656  
    108657 Traceback (most recent call last): 
    108658 File
    108659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108660 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108661 drew = self.draw_new_frame() 
    108662 File
    108663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108664 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108665 surface.update_clip_caps(view) 
    108666 File
    108667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108668 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108669 subdivision = settings.clipping_cap_subdivision) 
    108670 File
    108671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108672 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108673 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108674 File
    108675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108676 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108677 cm.set_geometry(varray, narray, tarray) 
    108678 File
    108679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108680 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108681 arv() 
    108682 File
    108683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108684 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108685 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108686 File
    108687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108688 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108689 s.vertex_colors = self.vertex_colors(report_stats) 
    108690 File
    108691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108692 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108693 values, outside = self.volume_values() 
    108694 File
    108695 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108696 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108697 return self.offset_values(v, n, tf) 
    108698 File
    108699 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108700 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108701 values, outside = self.vertex_values(v, xf) 
    108702 File
    108703 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108704 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108705 out_of_bounds_list = True) 
    108706 File
    108707 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108708 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108709 subregion, step) 
    108710 File
    108711 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108712 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108713 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108714 File
    108715 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108716 packages/chimerax/map/volume.py", line 1243, in
    108717 matrix_indices_to_xyz_transform 
    108718 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108719 File
    108720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108721 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108722 r = self.subregion(step, subregion) 
    108723 File
    108724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108725 packages/chimerax/map/volume.py", line 1558, in subregion 
    108726 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108727 AttributeError: 'NoneType' object has no attribute 'size' 
    108728  
    108729 AttributeError: 'NoneType' object has no attribute 'size' 
    108730  
    108731 File
    108732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108733 packages/chimerax/map/volume.py", line 1558, in subregion 
    108734 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108735  
    108736 See log for complete Python traceback. 
    108737  
    108738 Traceback (most recent call last): 
    108739 File
    108740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108741 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108742 drew = self.draw_new_frame() 
    108743 File
    108744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108745 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108746 surface.update_clip_caps(view) 
    108747 File
    108748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108749 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108750 subdivision = settings.clipping_cap_subdivision) 
    108751 File
    108752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108753 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108754 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108755 File
    108756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108757 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108758 cm.set_geometry(varray, narray, tarray) 
    108759 File
    108760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108761 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108762 arv() 
    108763 File
    108764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108765 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108766 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108767 File
    108768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108769 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108770 s.vertex_colors = self.vertex_colors(report_stats) 
    108771 File
    108772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108773 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108774 values, outside = self.volume_values() 
    108775 File
    108776 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108777 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108778 return self.offset_values(v, n, tf) 
    108779 File
    108780 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108781 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108782 values, outside = self.vertex_values(v, xf) 
    108783 File
    108784 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108785 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108786 out_of_bounds_list = True) 
    108787 File
    108788 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108789 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108790 subregion, step) 
    108791 File
    108792 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108793 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108794 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108795 File
    108796 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108797 packages/chimerax/map/volume.py", line 1243, in
    108798 matrix_indices_to_xyz_transform 
    108799 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108800 File
    108801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108802 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108803 r = self.subregion(step, subregion) 
    108804 File
    108805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108806 packages/chimerax/map/volume.py", line 1558, in subregion 
    108807 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108808 AttributeError: 'NoneType' object has no attribute 'size' 
    108809  
    108810 AttributeError: 'NoneType' object has no attribute 'size' 
    108811  
    108812 File
    108813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108814 packages/chimerax/map/volume.py", line 1558, in subregion 
    108815 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108816  
    108817 See log for complete Python traceback. 
    108818  
    108819 Traceback (most recent call last): 
    108820 File
    108821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108822 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108823 drew = self.draw_new_frame() 
    108824 File
    108825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108826 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108827 surface.update_clip_caps(view) 
    108828 File
    108829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108830 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108831 subdivision = settings.clipping_cap_subdivision) 
    108832 File
    108833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108834 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108835 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108836 File
    108837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108838 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108839 cm.set_geometry(varray, narray, tarray) 
    108840 File
    108841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108842 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108843 arv() 
    108844 File
    108845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108846 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108847 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108848 File
    108849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108850 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108851 s.vertex_colors = self.vertex_colors(report_stats) 
    108852 File
    108853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108854 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108855 values, outside = self.volume_values() 
    108856 File
    108857 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108858 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108859 return self.offset_values(v, n, tf) 
    108860 File
    108861 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108862 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108863 values, outside = self.vertex_values(v, xf) 
    108864 File
    108865 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108866 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108867 out_of_bounds_list = True) 
    108868 File
    108869 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108870 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108871 subregion, step) 
    108872 File
    108873 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108874 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108875 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108876 File
    108877 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108878 packages/chimerax/map/volume.py", line 1243, in
    108879 matrix_indices_to_xyz_transform 
    108880 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108881 File
    108882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108883 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108884 r = self.subregion(step, subregion) 
    108885 File
    108886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108887 packages/chimerax/map/volume.py", line 1558, in subregion 
    108888 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108889 AttributeError: 'NoneType' object has no attribute 'size' 
    108890  
    108891 AttributeError: 'NoneType' object has no attribute 'size' 
    108892  
    108893 File
    108894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108895 packages/chimerax/map/volume.py", line 1558, in subregion 
    108896 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108897  
    108898 See log for complete Python traceback. 
    108899  
    108900 Traceback (most recent call last): 
    108901 File
    108902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108903 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108904 drew = self.draw_new_frame() 
    108905 File
    108906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108907 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108908 surface.update_clip_caps(view) 
    108909 File
    108910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108911 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108912 subdivision = settings.clipping_cap_subdivision) 
    108913 File
    108914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108915 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    108916 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    108917 File
    108918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108919 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    108920 cm.set_geometry(varray, narray, tarray) 
    108921 File
    108922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108923 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    108924 arv() 
    108925 File
    108926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108927 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    108928 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    108929 File
    108930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108931 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    108932 s.vertex_colors = self.vertex_colors(report_stats) 
    108933 File
    108934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108935 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    108936 values, outside = self.volume_values() 
    108937 File
    108938 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108939 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    108940 return self.offset_values(v, n, tf) 
    108941 File
    108942 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108943 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    108944 values, outside = self.vertex_values(v, xf) 
    108945 File
    108946 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108947 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    108948 out_of_bounds_list = True) 
    108949 File
    108950 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108951 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    108952 subregion, step) 
    108953 File
    108954 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108955 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    108956 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    108957 File
    108958 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108959 packages/chimerax/map/volume.py", line 1243, in
    108960 matrix_indices_to_xyz_transform 
    108961 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    108962 File
    108963 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108964 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    108965 r = self.subregion(step, subregion) 
    108966 File
    108967 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108968 packages/chimerax/map/volume.py", line 1558, in subregion 
    108969 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108970 AttributeError: 'NoneType' object has no attribute 'size' 
    108971  
    108972 AttributeError: 'NoneType' object has no attribute 'size' 
    108973  
    108974 File
    108975 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108976 packages/chimerax/map/volume.py", line 1558, in subregion 
    108977 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    108978  
    108979 See log for complete Python traceback. 
    108980  
    108981 
    108982 Window position QRect(689,1069 100x30) outside any known screen, using primary
    108983 screen 
    108984 
    108985 Traceback (most recent call last): 
    108986 File
    108987 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108988 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    108989 drew = self.draw_new_frame() 
    108990 File
    108991 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108992 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    108993 surface.update_clip_caps(view) 
    108994 File
    108995 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    108996 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    108997 subdivision = settings.clipping_cap_subdivision) 
    108998 File
    108999 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109000 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109001 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109002 File
    109003 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109004 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109005 cm.set_geometry(varray, narray, tarray) 
    109006 File
    109007 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109008 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109009 arv() 
    109010 File
    109011 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109012 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109013 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109014 File
    109015 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109016 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109017 s.vertex_colors = self.vertex_colors(report_stats) 
    109018 File
    109019 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109020 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109021 values, outside = self.volume_values() 
    109022 File
    109023 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109024 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109025 return self.offset_values(v, n, tf) 
    109026 File
    109027 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109028 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109029 values, outside = self.vertex_values(v, xf) 
    109030 File
    109031 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109032 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109033 out_of_bounds_list = True) 
    109034 File
    109035 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109036 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109037 subregion, step) 
    109038 File
    109039 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109040 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109041 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109042 File
    109043 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109044 packages/chimerax/map/volume.py", line 1243, in
    109045 matrix_indices_to_xyz_transform 
    109046 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109047 File
    109048 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109049 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109050 r = self.subregion(step, subregion) 
    109051 File
    109052 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109053 packages/chimerax/map/volume.py", line 1558, in subregion 
    109054 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109055 AttributeError: 'NoneType' object has no attribute 'size' 
    109056  
    109057 AttributeError: 'NoneType' object has no attribute 'size' 
    109058  
    109059 File
    109060 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109061 packages/chimerax/map/volume.py", line 1558, in subregion 
    109062 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109063  
    109064 See log for complete Python traceback. 
    109065  
    109066 Traceback (most recent call last): 
    109067 File
    109068 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109069 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109070 drew = self.draw_new_frame() 
    109071 File
    109072 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109073 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109074 surface.update_clip_caps(view) 
    109075 File
    109076 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109077 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109078 subdivision = settings.clipping_cap_subdivision) 
    109079 File
    109080 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109081 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109082 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109083 File
    109084 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109085 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109086 cm.set_geometry(varray, narray, tarray) 
    109087 File
    109088 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109089 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109090 arv() 
    109091 File
    109092 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109093 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109094 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109095 File
    109096 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109097 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109098 s.vertex_colors = self.vertex_colors(report_stats) 
    109099 File
    109100 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109101 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109102 values, outside = self.volume_values() 
    109103 File
    109104 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109105 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109106 return self.offset_values(v, n, tf) 
    109107 File
    109108 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109109 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109110 values, outside = self.vertex_values(v, xf) 
    109111 File
    109112 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109113 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109114 out_of_bounds_list = True) 
    109115 File
    109116 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109117 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109118 subregion, step) 
    109119 File
    109120 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109121 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109122 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109123 File
    109124 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109125 packages/chimerax/map/volume.py", line 1243, in
    109126 matrix_indices_to_xyz_transform 
    109127 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109128 File
    109129 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109130 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109131 r = self.subregion(step, subregion) 
    109132 File
    109133 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109134 packages/chimerax/map/volume.py", line 1558, in subregion 
    109135 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109136 AttributeError: 'NoneType' object has no attribute 'size' 
    109137  
    109138 AttributeError: 'NoneType' object has no attribute 'size' 
    109139  
    109140 File
    109141 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109142 packages/chimerax/map/volume.py", line 1558, in subregion 
    109143 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109144  
    109145 See log for complete Python traceback. 
    109146  
    109147 Traceback (most recent call last): 
    109148 File
    109149 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109150 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109151 drew = self.draw_new_frame() 
    109152 File
    109153 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109154 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109155 surface.update_clip_caps(view) 
    109156 File
    109157 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109158 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109159 subdivision = settings.clipping_cap_subdivision) 
    109160 File
    109161 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109162 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109163 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109164 File
    109165 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109166 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109167 cm.set_geometry(varray, narray, tarray) 
    109168 File
    109169 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109170 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109171 arv() 
    109172 File
    109173 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109174 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109175 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109176 File
    109177 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109178 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109179 s.vertex_colors = self.vertex_colors(report_stats) 
    109180 File
    109181 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109182 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109183 values, outside = self.volume_values() 
    109184 File
    109185 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109186 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109187 return self.offset_values(v, n, tf) 
    109188 File
    109189 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109190 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109191 values, outside = self.vertex_values(v, xf) 
    109192 File
    109193 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109194 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109195 out_of_bounds_list = True) 
    109196 File
    109197 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109198 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109199 subregion, step) 
    109200 File
    109201 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109202 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109203 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109204 File
    109205 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109206 packages/chimerax/map/volume.py", line 1243, in
    109207 matrix_indices_to_xyz_transform 
    109208 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109209 File
    109210 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109211 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109212 r = self.subregion(step, subregion) 
    109213 File
    109214 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109215 packages/chimerax/map/volume.py", line 1558, in subregion 
    109216 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109217 AttributeError: 'NoneType' object has no attribute 'size' 
    109218  
    109219 AttributeError: 'NoneType' object has no attribute 'size' 
    109220  
    109221 File
    109222 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109223 packages/chimerax/map/volume.py", line 1558, in subregion 
    109224 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109225  
    109226 See log for complete Python traceback. 
    109227  
    109228 Traceback (most recent call last): 
    109229 File
    109230 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109231 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109232 drew = self.draw_new_frame() 
    109233 File
    109234 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109235 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109236 surface.update_clip_caps(view) 
    109237 File
    109238 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109239 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109240 subdivision = settings.clipping_cap_subdivision) 
    109241 File
    109242 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109243 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109244 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109245 File
    109246 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109247 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109248 cm.set_geometry(varray, narray, tarray) 
    109249 File
    109250 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109251 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109252 arv() 
    109253 File
    109254 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109255 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109256 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109257 File
    109258 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109259 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109260 s.vertex_colors = self.vertex_colors(report_stats) 
    109261 File
    109262 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109263 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109264 values, outside = self.volume_values() 
    109265 File
    109266 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109267 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109268 return self.offset_values(v, n, tf) 
    109269 File
    109270 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109271 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109272 values, outside = self.vertex_values(v, xf) 
    109273 File
    109274 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109275 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109276 out_of_bounds_list = True) 
    109277 File
    109278 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109279 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109280 subregion, step) 
    109281 File
    109282 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109283 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109284 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109285 File
    109286 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109287 packages/chimerax/map/volume.py", line 1243, in
    109288 matrix_indices_to_xyz_transform 
    109289 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109290 File
    109291 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109292 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109293 r = self.subregion(step, subregion) 
    109294 File
    109295 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109296 packages/chimerax/map/volume.py", line 1558, in subregion 
    109297 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109298 AttributeError: 'NoneType' object has no attribute 'size' 
    109299  
    109300 AttributeError: 'NoneType' object has no attribute 'size' 
    109301  
    109302 File
    109303 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109304 packages/chimerax/map/volume.py", line 1558, in subregion 
    109305 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109306  
    109307 See log for complete Python traceback. 
    109308  
    109309 Traceback (most recent call last): 
    109310 File
    109311 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109312 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109313 drew = self.draw_new_frame() 
    109314 File
    109315 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109316 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109317 surface.update_clip_caps(view) 
    109318 File
    109319 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109320 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109321 subdivision = settings.clipping_cap_subdivision) 
    109322 File
    109323 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109324 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109325 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109326 File
    109327 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109328 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109329 cm.set_geometry(varray, narray, tarray) 
    109330 File
    109331 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109332 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109333 arv() 
    109334 File
    109335 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109336 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109337 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109338 File
    109339 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109340 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109341 s.vertex_colors = self.vertex_colors(report_stats) 
    109342 File
    109343 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109344 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109345 values, outside = self.volume_values() 
    109346 File
    109347 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109348 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109349 return self.offset_values(v, n, tf) 
    109350 File
    109351 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109352 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109353 values, outside = self.vertex_values(v, xf) 
    109354 File
    109355 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109356 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109357 out_of_bounds_list = True) 
    109358 File
    109359 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109360 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109361 subregion, step) 
    109362 File
    109363 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109364 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109365 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109366 File
    109367 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109368 packages/chimerax/map/volume.py", line 1243, in
    109369 matrix_indices_to_xyz_transform 
    109370 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109371 File
    109372 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109373 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109374 r = self.subregion(step, subregion) 
    109375 File
    109376 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109377 packages/chimerax/map/volume.py", line 1558, in subregion 
    109378 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109379 AttributeError: 'NoneType' object has no attribute 'size' 
    109380  
    109381 AttributeError: 'NoneType' object has no attribute 'size' 
    109382  
    109383 File
    109384 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109385 packages/chimerax/map/volume.py", line 1558, in subregion 
    109386 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109387  
    109388 See log for complete Python traceback. 
    109389  
    109390 Traceback (most recent call last): 
    109391 File
    109392 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109393 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109394 drew = self.draw_new_frame() 
    109395 File
    109396 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109397 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109398 surface.update_clip_caps(view) 
    109399 File
    109400 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109401 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109402 subdivision = settings.clipping_cap_subdivision) 
    109403 File
    109404 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109405 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109406 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109407 File
    109408 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109409 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109410 cm.set_geometry(varray, narray, tarray) 
    109411 File
    109412 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109413 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109414 arv() 
    109415 File
    109416 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109417 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109418 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109419 File
    109420 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109421 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109422 s.vertex_colors = self.vertex_colors(report_stats) 
    109423 File
    109424 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109425 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109426 values, outside = self.volume_values() 
    109427 File
    109428 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109429 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109430 return self.offset_values(v, n, tf) 
    109431 File
    109432 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109433 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109434 values, outside = self.vertex_values(v, xf) 
    109435 File
    109436 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109437 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109438 out_of_bounds_list = True) 
    109439 File
    109440 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109441 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109442 subregion, step) 
    109443 File
    109444 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109445 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109446 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109447 File
    109448 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109449 packages/chimerax/map/volume.py", line 1243, in
    109450 matrix_indices_to_xyz_transform 
    109451 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109452 File
    109453 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109454 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109455 r = self.subregion(step, subregion) 
    109456 File
    109457 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109458 packages/chimerax/map/volume.py", line 1558, in subregion 
    109459 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109460 AttributeError: 'NoneType' object has no attribute 'size' 
    109461  
    109462 AttributeError: 'NoneType' object has no attribute 'size' 
    109463  
    109464 File
    109465 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109466 packages/chimerax/map/volume.py", line 1558, in subregion 
    109467 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109468  
    109469 See log for complete Python traceback. 
    109470  
    109471 Traceback (most recent call last): 
    109472 File
    109473 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109474 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109475 drew = self.draw_new_frame() 
    109476 File
    109477 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109478 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109479 surface.update_clip_caps(view) 
    109480 File
    109481 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109482 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109483 subdivision = settings.clipping_cap_subdivision) 
    109484 File
    109485 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109486 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109487 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109488 File
    109489 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109490 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109491 cm.set_geometry(varray, narray, tarray) 
    109492 File
    109493 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109494 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109495 arv() 
    109496 File
    109497 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109498 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109499 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109500 File
    109501 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109502 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109503 s.vertex_colors = self.vertex_colors(report_stats) 
    109504 File
    109505 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109506 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109507 values, outside = self.volume_values() 
    109508 File
    109509 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109510 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109511 return self.offset_values(v, n, tf) 
    109512 File
    109513 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109514 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109515 values, outside = self.vertex_values(v, xf) 
    109516 File
    109517 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109518 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109519 out_of_bounds_list = True) 
    109520 File
    109521 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109522 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109523 subregion, step) 
    109524 File
    109525 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109526 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109527 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109528 File
    109529 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109530 packages/chimerax/map/volume.py", line 1243, in
    109531 matrix_indices_to_xyz_transform 
    109532 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109533 File
    109534 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109535 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109536 r = self.subregion(step, subregion) 
    109537 File
    109538 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109539 packages/chimerax/map/volume.py", line 1558, in subregion 
    109540 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109541 AttributeError: 'NoneType' object has no attribute 'size' 
    109542  
    109543 AttributeError: 'NoneType' object has no attribute 'size' 
    109544  
    109545 File
    109546 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109547 packages/chimerax/map/volume.py", line 1558, in subregion 
    109548 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109549  
    109550 See log for complete Python traceback. 
    109551  
    109552 Traceback (most recent call last): 
    109553 File
    109554 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109555 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109556 drew = self.draw_new_frame() 
    109557 File
    109558 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109559 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109560 surface.update_clip_caps(view) 
    109561 File
    109562 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109563 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109564 subdivision = settings.clipping_cap_subdivision) 
    109565 File
    109566 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109567 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109568 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109569 File
    109570 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109571 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109572 cm.set_geometry(varray, narray, tarray) 
    109573 File
    109574 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109575 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109576 arv() 
    109577 File
    109578 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109579 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109580 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109581 File
    109582 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109583 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109584 s.vertex_colors = self.vertex_colors(report_stats) 
    109585 File
    109586 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109587 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109588 values, outside = self.volume_values() 
    109589 File
    109590 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109591 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109592 return self.offset_values(v, n, tf) 
    109593 File
    109594 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109595 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109596 values, outside = self.vertex_values(v, xf) 
    109597 File
    109598 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109599 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109600 out_of_bounds_list = True) 
    109601 File
    109602 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109603 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109604 subregion, step) 
    109605 File
    109606 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109607 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109608 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109609 File
    109610 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109611 packages/chimerax/map/volume.py", line 1243, in
    109612 matrix_indices_to_xyz_transform 
    109613 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109614 File
    109615 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109616 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109617 r = self.subregion(step, subregion) 
    109618 File
    109619 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109620 packages/chimerax/map/volume.py", line 1558, in subregion 
    109621 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109622 AttributeError: 'NoneType' object has no attribute 'size' 
    109623  
    109624 AttributeError: 'NoneType' object has no attribute 'size' 
    109625  
    109626 File
    109627 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109628 packages/chimerax/map/volume.py", line 1558, in subregion 
    109629 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109630  
    109631 See log for complete Python traceback. 
    109632  
    109633 Traceback (most recent call last): 
    109634 File
    109635 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109636 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109637 drew = self.draw_new_frame() 
    109638 File
    109639 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109640 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109641 surface.update_clip_caps(view) 
    109642 File
    109643 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109644 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109645 subdivision = settings.clipping_cap_subdivision) 
    109646 File
    109647 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109648 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109649 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109650 File
    109651 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109652 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109653 cm.set_geometry(varray, narray, tarray) 
    109654 File
    109655 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109656 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109657 arv() 
    109658 File
    109659 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109660 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109661 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109662 File
    109663 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109664 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109665 s.vertex_colors = self.vertex_colors(report_stats) 
    109666 File
    109667 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109668 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109669 values, outside = self.volume_values() 
    109670 File
    109671 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109672 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109673 return self.offset_values(v, n, tf) 
    109674 File
    109675 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109676 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109677 values, outside = self.vertex_values(v, xf) 
    109678 File
    109679 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109680 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109681 out_of_bounds_list = True) 
    109682 File
    109683 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109684 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109685 subregion, step) 
    109686 File
    109687 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109688 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109689 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109690 File
    109691 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109692 packages/chimerax/map/volume.py", line 1243, in
    109693 matrix_indices_to_xyz_transform 
    109694 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109695 File
    109696 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109697 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109698 r = self.subregion(step, subregion) 
    109699 File
    109700 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109701 packages/chimerax/map/volume.py", line 1558, in subregion 
    109702 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109703 AttributeError: 'NoneType' object has no attribute 'size' 
    109704  
    109705 AttributeError: 'NoneType' object has no attribute 'size' 
    109706  
    109707 File
    109708 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109709 packages/chimerax/map/volume.py", line 1558, in subregion 
    109710 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109711  
    109712 See log for complete Python traceback. 
    109713  
    109714 Traceback (most recent call last): 
    109715 File
    109716 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109717 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109718 drew = self.draw_new_frame() 
    109719 File
    109720 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109721 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109722 surface.update_clip_caps(view) 
    109723 File
    109724 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109725 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109726 subdivision = settings.clipping_cap_subdivision) 
    109727 File
    109728 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109729 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109730 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109731 File
    109732 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109733 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109734 cm.set_geometry(varray, narray, tarray) 
    109735 File
    109736 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109737 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109738 arv() 
    109739 File
    109740 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109741 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109742 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109743 File
    109744 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109745 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109746 s.vertex_colors = self.vertex_colors(report_stats) 
    109747 File
    109748 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109749 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109750 values, outside = self.volume_values() 
    109751 File
    109752 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109753 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109754 return self.offset_values(v, n, tf) 
    109755 File
    109756 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109757 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109758 values, outside = self.vertex_values(v, xf) 
    109759 File
    109760 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109761 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109762 out_of_bounds_list = True) 
    109763 File
    109764 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109765 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109766 subregion, step) 
    109767 File
    109768 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109769 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109770 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109771 File
    109772 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109773 packages/chimerax/map/volume.py", line 1243, in
    109774 matrix_indices_to_xyz_transform 
    109775 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109776 File
    109777 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109778 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109779 r = self.subregion(step, subregion) 
    109780 File
    109781 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109782 packages/chimerax/map/volume.py", line 1558, in subregion 
    109783 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109784 AttributeError: 'NoneType' object has no attribute 'size' 
    109785  
    109786 AttributeError: 'NoneType' object has no attribute 'size' 
    109787  
    109788 File
    109789 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109790 packages/chimerax/map/volume.py", line 1558, in subregion 
    109791 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109792  
    109793 See log for complete Python traceback. 
    109794  
    109795 Traceback (most recent call last): 
    109796 File
    109797 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109798 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109799 drew = self.draw_new_frame() 
    109800 File
    109801 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109802 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109803 surface.update_clip_caps(view) 
    109804 File
    109805 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109806 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109807 subdivision = settings.clipping_cap_subdivision) 
    109808 File
    109809 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109810 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109811 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109812 File
    109813 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109814 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109815 cm.set_geometry(varray, narray, tarray) 
    109816 File
    109817 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109818 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109819 arv() 
    109820 File
    109821 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109822 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109823 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109824 File
    109825 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109826 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109827 s.vertex_colors = self.vertex_colors(report_stats) 
    109828 File
    109829 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109830 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109831 values, outside = self.volume_values() 
    109832 File
    109833 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109834 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109835 return self.offset_values(v, n, tf) 
    109836 File
    109837 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109838 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109839 values, outside = self.vertex_values(v, xf) 
    109840 File
    109841 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109842 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109843 out_of_bounds_list = True) 
    109844 File
    109845 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109846 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109847 subregion, step) 
    109848 File
    109849 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109850 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109851 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109852 File
    109853 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109854 packages/chimerax/map/volume.py", line 1243, in
    109855 matrix_indices_to_xyz_transform 
    109856 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109857 File
    109858 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109859 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109860 r = self.subregion(step, subregion) 
    109861 File
    109862 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109863 packages/chimerax/map/volume.py", line 1558, in subregion 
    109864 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109865 AttributeError: 'NoneType' object has no attribute 'size' 
    109866  
    109867 AttributeError: 'NoneType' object has no attribute 'size' 
    109868  
    109869 File
    109870 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109871 packages/chimerax/map/volume.py", line 1558, in subregion 
    109872 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109873  
    109874 See log for complete Python traceback. 
    109875  
    109876 Traceback (most recent call last): 
    109877 File
    109878 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109879 packages/chimerax/core/updateloop.py", line 138, in _redraw_timer_callback 
    109880 drew = self.draw_new_frame() 
    109881 File
    109882 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109883 packages/chimerax/core/updateloop.py", line 62, in draw_new_frame 
    109884 surface.update_clip_caps(view) 
    109885 File
    109886 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109887 packages/chimerax/surface/cap.py", line 30, in update_clip_caps 
    109888 subdivision = settings.clipping_cap_subdivision) 
    109889 File
    109890 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109891 packages/chimerax/surface/cap.py", line 46, in show_surface_clip_caps 
    109892 set_cap_drawing_geometry(d, p.name, varray, narray, tarray) 
    109893 File
    109894 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109895 packages/chimerax/surface/cap.py", line 184, in set_cap_drawing_geometry 
    109896 cm.set_geometry(varray, narray, tarray) 
    109897 File
    109898 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109899 packages/chimerax/graphics/drawing.py", line 649, in set_geometry 
    109900 arv() 
    109901 File
    109902 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109903 packages/chimerax/surface/colorvol.py", line 154, in <lambda> 
    109904 arv = lambda self=self: self.set_vertex_colors(report_stats = False) 
    109905 File
    109906 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109907 packages/chimerax/surface/colorvol.py", line 229, in set_vertex_colors 
    109908 s.vertex_colors = self.vertex_colors(report_stats) 
    109909 File
    109910 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109911 packages/chimerax/surface/colorvol.py", line 199, in vertex_colors 
    109912 values, outside = self.volume_values() 
    109913 File
    109914 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109915 packages/chimerax/surface/colorvol.py", line 257, in volume_values 
    109916 return self.offset_values(v, n, tf) 
    109917 File
    109918 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109919 packages/chimerax/surface/colorvol.py", line 265, in offset_values 
    109920 values, outside = self.vertex_values(v, xf) 
    109921 File
    109922 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109923 packages/chimerax/surface/colorvol.py", line 299, in vertex_values 
    109924 out_of_bounds_list = True) 
    109925 File
    109926 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109927 packages/chimerax/map/volume.py", line 1334, in interpolated_values 
    109928 subregion, step) 
    109929 File
    109930 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109931 packages/chimerax/map/volume.py", line 1510, in matrix_and_transform 
    109932 m2s_transform = self.matrix_indices_to_xyz_transform(step, subregion) 
    109933 File
    109934 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109935 packages/chimerax/map/volume.py", line 1243, in
    109936 matrix_indices_to_xyz_transform 
    109937 ijk_origin, ijk_size, ijk_step = self.ijk_aligned_region(step, subregion) 
    109938 File
    109939 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109940 packages/chimerax/map/volume.py", line 1297, in ijk_aligned_region 
    109941 r = self.subregion(step, subregion) 
    109942 File
    109943 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109944 packages/chimerax/map/volume.py", line 1558, in subregion 
    109945 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109946 AttributeError: 'NoneType' object has no attribute 'size' 
    109947  
    109948 AttributeError: 'NoneType' object has no attribute 'size' 
    109949  
    109950 File
    109951 "/Applications/ChimeraX-0.93.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
    109952 packages/chimerax/map/volume.py", line 1558, in subregion 
    109953 ijk_min, ijk_max = full_region(self.data.size)[:2] 
    109954  
    109955 See log for complete Python traceback. 
    109956  
    1099578142
    1099588143