Cage Builder: name 'place_model' is not defined

[Scooter Morris]

The following bug report has been submitted:
Platform:        Darwin-18.2.0-x86_64-i386-64bit
ChimeraX Version: 0.8 (2018-11-11)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 0.8 (2018-11-11)  
How to cite UCSF ChimeraX  

> open 3w7f format mmCIF fromDatabase pdb

3w7f title:  
Crystal structure of the C(30) carotenoid dehydrosqualene synthase from
staphylococcus aureus complexed with farnesyl thiopyrophosphate [more info...]  
  
Chain information for 3w7f #1  
---  
Chain | Description  
A B | Dehydrosqualene synthase  
  
3w7f mmCIF Assemblies  
---  
1| author_and_software_defined_assembly  
2| author_and_software_defined_assembly  
  
  

> view

> view sel

> toolshed show "Side View"

> view

> toolshed show "Side View"

> view sel

> view

Unknown command: usae  

> usage

Use 'usage <command>' for a command synopsis.  
Use 'help <command>' to learn more about a command.  
Exception ignored in: <bound method Framebuffer.__del__ of
<chimerax.core.graphics.opengl.Framebuffer object at 0x1371e5710>>  
Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/graphics/opengl.py", line 1739, in __del__  
% self.name)  
RuntimeError: OpenGL framebuffer mask was not deleted before
core.graphics.Framebuffer destroyed  
Exception ignored in: <bound method Texture.__del__ of
<chimerax.core.graphics.opengl.Texture object at 0x1325edeb8>>  
Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/graphics/opengl.py", line 2505, in __del__  
raise RuntimeError('OpenGL texture was not deleted before
core.graphics.Texture destroyed')  
RuntimeError: OpenGL texture was not deleted before core.graphics.Texture
destroyed  
Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/toolshed/info.py", line 272, in _register_cmd  
api._api_caller.register_command(api, self, ci, logger)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/toolshed/__init__.py", line 1189, in register_command  
return cls._get_func(api, "register_command")(ci.name, logger)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/cage_builder/__init__.py", line 28, in register_command  
cmd.register_cage_command(logger)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/cage_builder/cmd.py", line 84, in register_cage_command  
required_arguments = [place_model],  
NameError: name 'place_model' is not defined  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 1886, in lazy_register  
deferred.call()  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 1816, in call  
return self.proxy()  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/toolshed/info.py", line 265, in cb  
s._register_cmd(ci, l)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/toolshed/info.py", line 275, in _register_cmd  
"register_command() failed for command %s in bundle %s:\n%s" % (ci.name,
self.name, str(e)))  
chimerax.core.toolshed.ToolshedError: register_command() failed for command
cage in bundle ChimeraX-Cage-Builder:  
name 'place_model' is not defined  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/cmd_line/tool.py", line 220, in execute  
cmd.run(cmd_text)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 2581, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/std_commands/usage.py", line 31, in usage  
cmds = cli.registered_commands(multiword=True)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 2997, in registered_commands  
return list(cmds('', parent_info))  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 2980, in cmds  
word_info.lazy_register(word)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 1888, in lazy_register  
raise RuntimeError("delayed command registration for %r failed (%s)" %
(cmd_name, e))  
RuntimeError: delayed command registration for 'cage' failed
(register_command() failed for command cage in bundle ChimeraX-Cage-Builder:  
name 'place_model' is not defined)  
  
RuntimeError: delayed command registration for 'cage' failed
(register_command() failed for command cage in bundle ChimeraX-Cage-Builder:  
name 'place_model' is not defined)  
  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 1888, in lazy_register  
raise RuntimeError("delayed command registration for %r failed (%s)" %
(cmd_name, e))  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 ATI-2.2.8
OpenGL renderer: AMD Radeon Pro 555X OpenGL Engine
OpenGL vendor: ATI Technologies Inc.

[Tom Goddard]

Fixed a couple weeks ago. Your ChimeraX is from Nov 11 before the fix.