![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 5 days ago
Closed 4 days ago
#20291 closed defect (duplicate)
Crash moving tool window, Mac multiple displays
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description (last modified by )
The following bug report has been submitted:
Platform: macOS-15.3.1-arm64-arm-64bit
ChimeraX Version: 1.11 (2025-12-17 06:45:39 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x00000001ffe04840 (most recent call first):
File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 414 in event_loop
File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1064 in init
File "/Applications/ChimeraX-1.11.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1229 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.map._map, PIL._imaging, psutil._psutil_osx, psutil._psutil_posix, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, lxml._elementpath, lxml.etree, PIL._imagingmath (total: 51)
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"codeSigningTeamID" : "LWV8X224YF",
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REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
UNUSED SPACE AT START
--->
__TEXT 100838000-10083c000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.11.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000008","rawCodes":[1,8],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000008"},
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REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
UNUSED SPACE AT START
--->
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"name" : "numpy_formathandler.cpython-311-darwin.so"
},
{
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"uuid" : "5bd21324-288d-31d8-a98b-f8c1776ff590",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/OpenGL_accelerate\/nones_formathandler.cpython-311-darwin.so",
"name" : "nones_formathandler.cpython-311-darwin.so"
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{
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"uuid" : "322fc538-890c-37d6-b941-662f1083ca42",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lz4\/_version.cpython-311-darwin.so",
"name" : "_version.cpython-311-darwin.so"
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{
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"uuid" : "83f39565-33c4-320a-ac75-81b90af76e46",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lz4\/frame\/_frame.cpython-311-darwin.so",
"name" : "_frame.cpython-311-darwin.so"
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{
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"uuid" : "bef79d77-164b-32c8-b975-670434b8d743",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/core\/_serialize.cpython-311-darwin.so",
"name" : "_serialize.cpython-311-darwin.so"
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{
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"uuid" : "4054e3d0-2474-37de-901e-4c10afdac686",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/msgpack\/_cmsgpack.cpython-311-darwin.so",
"name" : "_cmsgpack.cpython-311-darwin.so"
},
{
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"uuid" : "f660af98-8bcc-35ff-a0a7-91590a2716eb",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_csv.cpython-311-darwin.so",
"name" : "_csv.cpython-311-darwin.so"
},
{
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"uuid" : "0d5e2b04-5266-3fcf-8917-51cab65a30b4",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtOpenGL.abi3.so",
"name" : "QtOpenGL.abi3.so"
},
{
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"uuid" : "6159a840-3c3a-3d9e-9af1-35dea6d209e4",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/QtOpenGLWidgets.abi3.so",
"name" : "QtOpenGLWidgets.abi3.so"
},
{
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"uuid" : "bdbfbc59-c41d-3a69-8112-739716f2e836",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PyQt6\/Qt6\/lib\/QtOpenGLWidgets.framework\/Versions\/A\/QtOpenGLWidgets",
"name" : "QtOpenGLWidgets"
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{
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"uuid" : "06082bf4-58c8-3f16-9f71-841cf9880fbe",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lxml\/etree.cpython-311-darwin.so",
"name" : "etree.cpython-311-darwin.so"
},
{
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"uuid" : "63b5bd02-9626-3588-a39c-88d4f882312b",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/lxml\/_elementpath.cpython-311-darwin.so",
"name" : "_elementpath.cpython-311-darwin.so"
},
{
"source" : "P",
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"base" : 14006747136,
"size" : 32768,
"uuid" : "7c43df7b-5e3e-3a91-9bc6-b8f9ebd02ec2",
"path" : "\/Applications\/ChimeraX-1.11.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/PIL\/_imagingmath.cpython-311-darwin.so",
"name" : "_imagingmath.cpython-311-darwin.so"
},
{
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"path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
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{
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"uuid" : "642faf7a-874e-37e6-8aba-2b0cc09a3025",
"path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
"name" : "libsystem_pthread.dylib"
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{
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"uuid" : "92699527-645f-3d8d-aed8-1cfb0c034e15",
"path" : "\/usr\/lib\/system\/libsystem_c.dylib",
"name" : "libsystem_c.dylib"
},
{
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"base" : 6816559104,
"size" : 32748,
"uuid" : "984d08b8-f85c-36f5-9e17-5bff7fc779a3",
"path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
"name" : "libsystem_platform.dylib"
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{
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"name" : "CoreFoundation",
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{
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"size" : 14974976,
"uuid" : "16d282d0-8b48-3e76-8036-fcb45dece518",
"path" : "\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation",
"name" : "Foundation",
"CFBundleVersion" : "3302.1.400"
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{
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{
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REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 256K 2
Activity Tracing 256K 1
CG image 384K 20
ColorSync 640K 32
CoreAnimation 1776K 111
CoreGraphics 64K 4
CoreGraphics (reserved) 16K 1 reserved VM address space (unallocated)
CoreUI image data 5232K 48
Foundation 48K 2
Kernel Alloc Once 32K 1
MALLOC 4.6G 137
MALLOC guard page 288K 18
Mach message 64K 3
OpenGL GLSL 256K 3
PROTECTED_MEMORY 16K 1
STACK GUARD 768K 48
Stack 198.1M 49
Stack Guard 56.0M 1
VM_ALLOCATE 302.5M 125
VM_ALLOCATE (reserved) 288.0M 3 reserved VM address space (unallocated)
__AUTH 5284K 672
__AUTH_CONST 70.5M 920
__CTF 824 1
__DATA 32.5M 1037
__DATA_CONST 50.5M 1056
__DATA_DIRTY 2763K 342
__FONT_DATA 2352 1
__GLSLBUILTINS 5174K 1
__INFO_FILTER 8 1
__LINKEDIT 637.0M 130
__OBJC_RW 2374K 1
__TEXT 1.3G 1076
__TPRO_CONST 272K 2
dyld private memory 48K 2
mapped file 296.6M 59
owned unmapped memory 87.2M 1
page table in kernel 2868K 1
shared memory 3152K 22
=========== ======= =======
TOTAL 7.9G 5935
TOTAL, minus reserved VM space 7.6G 5935
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},
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===== Log before crash start =====
UCSF ChimeraX version: 1.11 (2025-12-17)
© 2016-2025 Regents of the University of California. All rights reserved.
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow5.cxs"
Opened cryosparc_P4_J216_class_03_00122_volume_sharp.mrc as #4, grid size
128,128,128, pixel 2.08, shown at level 0.203, step 1, values float32
Opened cryosparc_P4_J216_class_04_00122_volume_sharp.mrc as #5, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J216_class_0_sharp_flip.mrc as #1, grid size 128,128,128, pixel
2.08, shown at level 0.185, step 1, values float32
Opened CS_P4_J216_class_1_sharp_flip.mrc as #2, grid size 128,128,128, pixel
2.08, shown at level 0.203, step 1, values float32
Opened CS_P4_J216_class_2_sharp_flip.mrc as #3, grid size 128,128,128, pixel
2.08, shown at level 0.356, step 1, values float32
Opened CS_P4_J219_sharp_flip.mrc as #6, grid size 80,80,80, pixel 3.32, shown
at level 1.17, step 1, values float32
Opened CS_P4_J244_sharp_flip.mrc as #7, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened cryosparc_P4_J242_class_00_00122_volume_sharp.mrc as #8, grid size
128,128,128, pixel 2.08, shown at level 0.221, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #9, grid size
128,128,128, pixel 2.08, shown at level 0.146, step 1, values float32
Opened cryosparc_P4_J242_class_02_00122_volume_sharp.mrc as #10, grid size
128,128,128, pixel 2.08, shown at level 0.195, step 1, values float32
Opened cryosparc_P4_J242_class_03_00122_volume_sharp.mrc as #11, grid size
128,128,128, pixel 2.08, shown at level 0.15, step 1, values float32
Opened cryosparc_P4_J242_class_04_00122_volume_sharp.mrc as #12, grid size
128,128,128, pixel 2.08, shown at level 0.345, step 1, values float32
Opened cryosparc_P4_J117_class_00_00162_volume_sharp.mrc as #13, grid size
128,128,128, pixel 2.08, shown at level 0.163, step 1, values float32
Opened cryosparc_P4_J117_class_01_00162_volume_sharp.mrc as #14, grid size
128,128,128, pixel 2.08, shown at level 0.187, step 1, values float32
Opened CS_P4_J117_class_02_sharp_flip.mrc as #15, grid size 128,128,128, pixel
2.08, shown at level 0.335, step 1, values float32
Opened cryosparc_P4_J117_class_03_00162_volume_sharp.mrc as #16, grid size
128,128,128, pixel 2.08, shown at level 0.179, step 1, values float32
Opened cryosparc_P4_J117_class_04_00162_volume_sharp.mrc as #17, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J120_sharp_flip.mrc as #18, grid size 80,80,80, pixel 3.32, shown
at level 1.29, step 1, values float32
Opened cryosparc_P4_J169_class_00_00182_volume_sharp.mrc as #19, grid size
128,128,128, pixel 2.08, shown at level 0.156, step 1, values float32
Opened cryosparc_P4_J169_class_01_00182_volume_sharp.mrc as #20, grid size
128,128,128, pixel 2.08, shown at level 0.198, step 1, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #21, grid size
128,128,128, pixel 2.08, shown at level 0.248, step 1, values float32
Opened CS_P4_J169_class_03_sharp_flip.mrc as #22, grid size 128,128,128, pixel
2.08, shown at level 0.271, step 1, values float32
Opened cryosparc_P4_J169_class_04_00182_volume_sharp.mrc as #23, grid size
128,128,128, pixel 2.08, shown at level 0.2, step 1, values float32
Opened CS_P4_J176_NU_sharp_flip.mrc as #24, grid size 80,80,80, pixel 3.32,
shown at level 1.6, step 1, values float32
Opened CS_P4_J255_sharp_flip.mrc as #25, grid size 80,80,80, pixel 3.32, shown
at level 0.649, step 1, values float32
Opened CS_P4_J256_sharp_flip.mrc as #26, grid size 80,80,80, pixel 3.32, shown
at level 1.01, step 1, values float32
Opened CS_P4_J257_sharp_flip.mrc as #27, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened CS_P4_J258_sharp_flip.mrc as #28, grid size 80,80,80, pixel 3.32, shown
at level 0.533, step 1, values float32
Opened CS_P4_J259_sharp_flip.mrc as #29, grid size 80,80,80, pixel 3.32, shown
at level 0.567, step 1, values float32
Opened CS_P4_J267_sharp_flip.mrc as #30, grid size 320,320,320, pixel 0.831,
shown at level 0.134, step 1, values float32
Opened CS_P4_J277_sharp_flip.mrc as #31, grid size 320,320,320, pixel 0.831,
shown at level 0.143, step 1, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc as #32, grid size
320,320,320, pixel 0.831, shown at level 0.0548, step 2, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc as #33, grid size
320,320,320, pixel 0.831, shown at level 0.0508, step 2, values float32
Opened cryosparc_P4_J287_map_locres.mrc as #34, grid size 320,320,320, pixel
0.831, shown at level 3.78, step 2, values float32
Opened cryosparc_P4_J288_map_locres.mrc as #35, grid size 320,320,320, pixel
0.831, shown at level 3.77, step 2, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc z flip as #37, grid size
320,320,320, pixel 0.831, shown at level 0.065, step 1, values float32
Opened cryosparc_P4_J287_map_locres.mrc z flip as #38, grid size 320,320,320,
pixel 0.831, shown at level 3.78, step 1, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc z flip as #39, grid size
320,320,320, pixel 0.831, shown at level 0.0664, step 1, values float32
Opened cryosparc_P4_J288_map_locres.mrc z flip as #40, grid size 320,320,320,
pixel 0.831, shown at level 3.77, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #42, grid size
128,128,128, pixel 2.08, shown at level 0.254, step 1, values float32
Opened CS_P4_J282_sharp_flip.mrc as #36, grid size 320,320,320, pixel 0.831,
shown at level 0.0602, step 2, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #43, grid size
128,128,128, pixel 2.08, shown at level 0.228, step 1, values float32
Opened CS_P4_J295_sharp_flip.mrc as #44, grid size 320,320,320, pixel 0.831,
shown at level 0.0515, step 1, values float32
Opened CS_P4_J296_locres_flip.mrc as #45, grid size 320,320,320, pixel 0.831,
shown at level 8.66, step 1, values float32
Opened CS_P4_J300_sharp_flip.mrc as #46, grid size 320,320,320, pixel 0.831,
shown at level 0.0592, step 1, values float32
Opened CS_P4_J301_locres_flip.mrc as #47, grid size 320,320,320, pixel 0.831,
shown at level 9.68, step 1, values float32
Opened CS_P4_J302_sharp_flip.mrc as #48, grid size 80,80,80, pixel 3.32, shown
at level 0.612, step 1, values float32
Opened CS_P4_J303_sharp_flip.mrc as #49, grid size 80,80,80, pixel 3.32, shown
at level 0.575, step 1, values float32
Opened CS_P4_J304_sharp_flip.mrc as #50, grid size 80,80,80, pixel 3.32, shown
at level 1.95, step 1, values float32
Opened CS_P4_J305_sharp_flip.mrc as #51, grid size 80,80,80, pixel 3.32, shown
at level 0.569, step 1, values float32
Opened CS_P4_J306_sharp_flip.mrc as #52, grid size 80,80,80, pixel 3.32, shown
at level 1.03, step 1, values float32
Opened CS_P4_J307_sharp_flip.mrc as #53, grid size 80,80,80, pixel 3.32, shown
at level 0.417, step 1, values float32
Opened CS_P4_J308_sharp_flip.mrc as #54, grid size 80,80,80, pixel 3.32, shown
at level 0.487, step 1, values float32
Opened CS_P4_J309_sharp_flip.mrc as #55, grid size 80,80,80, pixel 3.32, shown
at level 0.427, step 1, values float32
Opened CS_P4_J310_sharp_flip.mrc as #56, grid size 80,80,80, pixel 3.32, shown
at level 0.719, step 1, values float32
Opened CS_P4_J311_sharp_flip.mrc as #57, grid size 80,80,80, pixel 3.32, shown
at level 0.525, step 1, values float32
Opened CS_P4_J323_sharp_flip.mrc as #58, grid size 320,320,320, pixel 0.831,
shown at level 0.0616, step 1, values float32
Opened CS_P4_J324_map_locres_flip.mrc as #59, grid size 320,320,320, pixel
0.831, shown at level 3.69, step 1, values float32
Opened CS_P4_J329_sharp_flip.mrc as #60, grid size 320,320,320, pixel 0.831,
shown at level 0.0566, step 1, values float32
Opened CS_P4_J330_locres_flip.mrc as #61, grid size 320,320,320, pixel 0.831,
shown at level 9.71, step 1, values float32
Opened CS_P4_J300_sharp_flip.mrc as #62, grid size 320,320,320, pixel 0.831,
shown at level 0.0575, step 1, values float32
Opened CS_P4_J301_locres_flip.mrc as #63, grid size 320,320,320, pixel 0.831,
shown at level 3.95, step 1, values float32
Log from Thu May 7 21:11:39 2026UCSF ChimeraX version: 1.11 (2025-12-17)
© 2016-2025 Regents of the University of California. All rights reserved.
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow3.cxs"
Opened cryosparc_P4_J216_class_03_00122_volume_sharp.mrc as #4, grid size
128,128,128, pixel 2.08, shown at level 0.203, step 1, values float32
Opened cryosparc_P4_J216_class_04_00122_volume_sharp.mrc as #5, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J216_class_0_sharp_flip.mrc as #1, grid size 128,128,128, pixel
2.08, shown at level 0.185, step 1, values float32
Opened CS_P4_J216_class_1_sharp_flip.mrc as #2, grid size 128,128,128, pixel
2.08, shown at level 0.203, step 1, values float32
Opened CS_P4_J216_class_2_sharp_flip.mrc as #3, grid size 128,128,128, pixel
2.08, shown at level 0.356, step 1, values float32
Opened CS_P4_J219_sharp_flip.mrc as #6, grid size 80,80,80, pixel 3.32, shown
at level 1.17, step 1, values float32
Opened CS_P4_J244_sharp_flip.mrc as #7, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened cryosparc_P4_J242_class_00_00122_volume_sharp.mrc as #8, grid size
128,128,128, pixel 2.08, shown at level 0.221, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #9, grid size
128,128,128, pixel 2.08, shown at level 0.146, step 1, values float32
Opened cryosparc_P4_J242_class_02_00122_volume_sharp.mrc as #10, grid size
128,128,128, pixel 2.08, shown at level 0.195, step 1, values float32
Opened cryosparc_P4_J242_class_03_00122_volume_sharp.mrc as #11, grid size
128,128,128, pixel 2.08, shown at level 0.15, step 1, values float32
Opened cryosparc_P4_J242_class_04_00122_volume_sharp.mrc as #12, grid size
128,128,128, pixel 2.08, shown at level 0.345, step 1, values float32
Opened cryosparc_P4_J117_class_00_00162_volume_sharp.mrc as #13, grid size
128,128,128, pixel 2.08, shown at level 0.163, step 1, values float32
Opened cryosparc_P4_J117_class_01_00162_volume_sharp.mrc as #14, grid size
128,128,128, pixel 2.08, shown at level 0.187, step 1, values float32
Opened CS_P4_J117_class_02_sharp_flip.mrc as #15, grid size 128,128,128, pixel
2.08, shown at level 0.335, step 1, values float32
Opened cryosparc_P4_J117_class_03_00162_volume_sharp.mrc as #16, grid size
128,128,128, pixel 2.08, shown at level 0.179, step 1, values float32
Opened cryosparc_P4_J117_class_04_00162_volume_sharp.mrc as #17, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J120_sharp_flip.mrc as #18, grid size 80,80,80, pixel 3.32, shown
at level 1.29, step 1, values float32
Opened cryosparc_P4_J169_class_00_00182_volume_sharp.mrc as #19, grid size
128,128,128, pixel 2.08, shown at level 0.156, step 1, values float32
Opened cryosparc_P4_J169_class_01_00182_volume_sharp.mrc as #20, grid size
128,128,128, pixel 2.08, shown at level 0.198, step 1, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #21, grid size
128,128,128, pixel 2.08, shown at level 0.248, step 1, values float32
Opened CS_P4_J169_class_03_sharp_flip.mrc as #22, grid size 128,128,128, pixel
2.08, shown at level 0.271, step 1, values float32
Opened cryosparc_P4_J169_class_04_00182_volume_sharp.mrc as #23, grid size
128,128,128, pixel 2.08, shown at level 0.2, step 1, values float32
Opened CS_P4_J176_NU_sharp_flip.mrc as #24, grid size 80,80,80, pixel 3.32,
shown at level 1.6, step 1, values float32
Opened CS_P4_J255_sharp_flip.mrc as #25, grid size 80,80,80, pixel 3.32, shown
at level 0.649, step 1, values float32
Opened CS_P4_J256_sharp_flip.mrc as #26, grid size 80,80,80, pixel 3.32, shown
at level 1.01, step 1, values float32
Opened CS_P4_J257_sharp_flip.mrc as #27, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened CS_P4_J258_sharp_flip.mrc as #28, grid size 80,80,80, pixel 3.32, shown
at level 0.533, step 1, values float32
Opened CS_P4_J259_sharp_flip.mrc as #29, grid size 80,80,80, pixel 3.32, shown
at level 0.567, step 1, values float32
Opened CS_P4_J267_sharp_flip.mrc as #30, grid size 320,320,320, pixel 0.831,
shown at level 0.134, step 1, values float32
Opened CS_P4_J277_sharp_flip.mrc as #31, grid size 320,320,320, pixel 0.831,
shown at level 0.143, step 1, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc as #32, grid size
320,320,320, pixel 0.831, shown at level 0.0548, step 2, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc as #33, grid size
320,320,320, pixel 0.831, shown at level 0.0508, step 2, values float32
Opened cryosparc_P4_J287_map_locres.mrc as #34, grid size 320,320,320, pixel
0.831, shown at level 3.78, step 2, values float32
Opened cryosparc_P4_J288_map_locres.mrc as #35, grid size 320,320,320, pixel
0.831, shown at level 3.77, step 2, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc z flip as #37, grid size
320,320,320, pixel 0.831, shown at level 0.065, step 1, values float32
Opened cryosparc_P4_J287_map_locres.mrc z flip as #38, grid size 320,320,320,
pixel 0.831, shown at level 3.78, step 1, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc z flip as #39, grid size
320,320,320, pixel 0.831, shown at level 0.0664, step 1, values float32
Opened cryosparc_P4_J288_map_locres.mrc z flip as #40, grid size 320,320,320,
pixel 0.831, shown at level 3.77, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #42, grid size
128,128,128, pixel 2.08, shown at level 0.254, step 1, values float32
Opened CS_P4_J282_sharp_flip.mrc as #36, grid size 320,320,320, pixel 0.831,
shown at level 0.0602, step 2, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #43, grid size
128,128,128, pixel 2.08, shown at level 0.228, step 1, values float32
Opened CS_P4_J295_sharp_flip.mrc as #44, grid size 320,320,320, pixel 0.831,
shown at level 0.0515, step 1, values float32
Opened CS_P4_J296_locres_flip.mrc as #45, grid size 320,320,320, pixel 0.831,
shown at level 8.66, step 1, values float32
Opened CS_P4_J300_sharp_flip.mrc as #46, grid size 320,320,320, pixel 0.831,
shown at level 0.0592, step 1, values float32
Opened CS_P4_J301_locres_flip.mrc as #47, grid size 320,320,320, pixel 0.831,
shown at level 9.68, step 1, values float32
Opened CS_P4_J302_sharp_flip.mrc as #48, grid size 80,80,80, pixel 3.32, shown
at level 0.612, step 1, values float32
Opened CS_P4_J303_sharp_flip.mrc as #49, grid size 80,80,80, pixel 3.32, shown
at level 0.575, step 1, values float32
Opened CS_P4_J304_sharp_flip.mrc as #50, grid size 80,80,80, pixel 3.32, shown
at level 1.95, step 1, values float32
Opened CS_P4_J305_sharp_flip.mrc as #51, grid size 80,80,80, pixel 3.32, shown
at level 0.569, step 1, values float32
Opened CS_P4_J306_sharp_flip.mrc as #52, grid size 80,80,80, pixel 3.32, shown
at level 1.03, step 1, values float32
Opened CS_P4_J307_sharp_flip.mrc as #53, grid size 80,80,80, pixel 3.32, shown
at level 0.417, step 1, values float32
Opened CS_P4_J308_sharp_flip.mrc as #54, grid size 80,80,80, pixel 3.32, shown
at level 0.487, step 1, values float32
Opened CS_P4_J309_sharp_flip.mrc as #55, grid size 80,80,80, pixel 3.32, shown
at level 0.427, step 1, values float32
Opened CS_P4_J310_sharp_flip.mrc as #56, grid size 80,80,80, pixel 3.32, shown
at level 0.719, step 1, values float32
Opened CS_P4_J311_sharp_flip.mrc as #57, grid size 80,80,80, pixel 3.32, shown
at level 0.525, step 1, values float32
Opened CS_P4_J323_sharp_flip.mrc as #58, grid size 320,320,320, pixel 0.831,
shown at level 0.0616, step 1, values float32
Opened CS_P4_J324_map_locres_flip.mrc as #59, grid size 320,320,320, pixel
0.831, shown at level 3.69, step 1, values float32
Opened CS_P4_J329_sharp_flip.mrc as #60, grid size 320,320,320, pixel 0.831,
shown at level 0.0566, step 1, values float32
Opened CS_P4_J330_locres_flip.mrc as #61, grid size 320,320,320, pixel 0.831,
shown at level 9.71, step 1, values float32
Log from Thu May 7 15:58:17 2026UCSF ChimeraX version: 1.11 (2025-12-17)
© 2016-2025 Regents of the University of California. All rights reserved.
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260506_SA-F_B1_workflow.cxs"
Opened cryosparc_P4_J216_class_03_00122_volume_sharp.mrc as #4, grid size
128,128,128, pixel 2.08, shown at level 0.203, step 1, values float32
Opened cryosparc_P4_J216_class_04_00122_volume_sharp.mrc as #5, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J216_class_0_sharp_flip.mrc as #1, grid size 128,128,128, pixel
2.08, shown at level 0.185, step 1, values float32
Opened CS_P4_J216_class_1_sharp_flip.mrc as #2, grid size 128,128,128, pixel
2.08, shown at level 0.203, step 1, values float32
Opened CS_P4_J216_class_2_sharp_flip.mrc as #3, grid size 128,128,128, pixel
2.08, shown at level 0.356, step 1, values float32
Opened CS_P4_J219_sharp_flip.mrc as #6, grid size 80,80,80, pixel 3.32, shown
at level 1.17, step 1, values float32
Opened CS_P4_J244_sharp_flip.mrc as #7, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened cryosparc_P4_J242_class_00_00122_volume_sharp.mrc as #8, grid size
128,128,128, pixel 2.08, shown at level 0.221, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #9, grid size
128,128,128, pixel 2.08, shown at level 0.146, step 1, values float32
Opened cryosparc_P4_J242_class_02_00122_volume_sharp.mrc as #10, grid size
128,128,128, pixel 2.08, shown at level 0.195, step 1, values float32
Opened cryosparc_P4_J242_class_03_00122_volume_sharp.mrc as #11, grid size
128,128,128, pixel 2.08, shown at level 0.15, step 1, values float32
Opened cryosparc_P4_J242_class_04_00122_volume_sharp.mrc as #12, grid size
128,128,128, pixel 2.08, shown at level 0.345, step 1, values float32
Opened cryosparc_P4_J117_class_00_00162_volume_sharp.mrc as #13, grid size
128,128,128, pixel 2.08, shown at level 0.163, step 1, values float32
Opened cryosparc_P4_J117_class_01_00162_volume_sharp.mrc as #14, grid size
128,128,128, pixel 2.08, shown at level 0.187, step 1, values float32
Opened CS_P4_J117_class_02_sharp_flip.mrc as #15, grid size 128,128,128, pixel
2.08, shown at level 0.335, step 1, values float32
Opened cryosparc_P4_J117_class_03_00162_volume_sharp.mrc as #16, grid size
128,128,128, pixel 2.08, shown at level 0.179, step 1, values float32
Opened cryosparc_P4_J117_class_04_00162_volume_sharp.mrc as #17, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J120_sharp_flip.mrc as #18, grid size 80,80,80, pixel 3.32, shown
at level 1.29, step 1, values float32
Opened cryosparc_P4_J169_class_00_00182_volume_sharp.mrc as #19, grid size
128,128,128, pixel 2.08, shown at level 0.156, step 1, values float32
Opened cryosparc_P4_J169_class_01_00182_volume_sharp.mrc as #20, grid size
128,128,128, pixel 2.08, shown at level 0.198, step 1, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #21, grid size
128,128,128, pixel 2.08, shown at level 0.248, step 1, values float32
Opened CS_P4_J169_class_03_sharp_flip.mrc as #22, grid size 128,128,128, pixel
2.08, shown at level 0.271, step 1, values float32
Opened cryosparc_P4_J169_class_04_00182_volume_sharp.mrc as #23, grid size
128,128,128, pixel 2.08, shown at level 0.2, step 1, values float32
Opened CS_P4_J176_NU_sharp_flip.mrc as #24, grid size 80,80,80, pixel 3.32,
shown at level 1.6, step 1, values float32
Opened CS_P4_J255_sharp_flip.mrc as #25, grid size 80,80,80, pixel 3.32, shown
at level 0.649, step 1, values float32
Opened CS_P4_J256_sharp_flip.mrc as #26, grid size 80,80,80, pixel 3.32, shown
at level 1.01, step 1, values float32
Opened CS_P4_J257_sharp_flip.mrc as #27, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened CS_P4_J258_sharp_flip.mrc as #28, grid size 80,80,80, pixel 3.32, shown
at level 0.533, step 1, values float32
Opened CS_P4_J259_sharp_flip.mrc as #29, grid size 80,80,80, pixel 3.32, shown
at level 0.567, step 1, values float32
Opened CS_P4_J267_sharp_flip.mrc as #30, grid size 320,320,320, pixel 0.831,
shown at level 0.134, step 1, values float32
Opened CS_P4_J277_sharp_flip.mrc as #31, grid size 320,320,320, pixel 0.831,
shown at level 0.143, step 1, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc as #32, grid size
320,320,320, pixel 0.831, shown at level 0.0548, step 2, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc as #33, grid size
320,320,320, pixel 0.831, shown at level 0.0508, step 2, values float32
Opened cryosparc_P4_J287_map_locres.mrc as #34, grid size 320,320,320, pixel
0.831, shown at level 3.78, step 2, values float32
Opened cryosparc_P4_J288_map_locres.mrc as #35, grid size 320,320,320, pixel
0.831, shown at level 3.77, step 2, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc z flip as #37, grid size
320,320,320, pixel 0.831, shown at level 0.065, step 1, values float32
Opened cryosparc_P4_J287_map_locres.mrc z flip as #38, grid size 320,320,320,
pixel 0.831, shown at level 3.78, step 1, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc z flip as #39, grid size
320,320,320, pixel 0.831, shown at level 0.0664, step 1, values float32
Opened cryosparc_P4_J288_map_locres.mrc z flip as #40, grid size 320,320,320,
pixel 0.831, shown at level 3.77, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #42, grid size
128,128,128, pixel 2.08, shown at level 0.254, step 1, values float32
Opened CS_P4_J282_sharp_flip.mrc as #36, grid size 320,320,320, pixel 0.831,
shown at level 0.0602, step 2, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #43, grid size
128,128,128, pixel 2.08, shown at level 0.228, step 1, values float32
Opened CS_P4_J295_sharp_flip.mrc as #44, grid size 320,320,320, pixel 0.831,
shown at level 0.0515, step 1, values float32
Opened CS_P4_J296_locres_flip.mrc as #45, grid size 320,320,320, pixel 0.831,
shown at level 8.66, step 1, values float32
Opened CS_P4_J300_sharp_flip.mrc as #46, grid size 320,320,320, pixel 0.831,
shown at level 0.0592, step 1, values float32
Opened CS_P4_J301_locres_flip.mrc as #47, grid size 320,320,320, pixel 0.831,
shown at level 9.68, step 1, values float32
Opened CS_P4_J302_sharp_flip.mrc as #48, grid size 80,80,80, pixel 3.32, shown
at level 0.612, step 1, values float32
Opened CS_P4_J303_sharp_flip.mrc as #49, grid size 80,80,80, pixel 3.32, shown
at level 0.575, step 1, values float32
Opened CS_P4_J304_sharp_flip.mrc as #50, grid size 80,80,80, pixel 3.32, shown
at level 1.95, step 1, values float32
Opened CS_P4_J305_sharp_flip.mrc as #51, grid size 80,80,80, pixel 3.32, shown
at level 0.569, step 1, values float32
Opened CS_P4_J306_sharp_flip.mrc as #52, grid size 80,80,80, pixel 3.32, shown
at level 1.03, step 1, values float32
Opened CS_P4_J307_sharp_flip.mrc as #53, grid size 80,80,80, pixel 3.32, shown
at level 0.417, step 1, values float32
Opened CS_P4_J308_sharp_flip.mrc as #54, grid size 80,80,80, pixel 3.32, shown
at level 0.487, step 1, values float32
Opened CS_P4_J309_sharp_flip.mrc as #55, grid size 80,80,80, pixel 3.32, shown
at level 0.427, step 1, values float32
Opened CS_P4_J310_sharp_flip.mrc as #56, grid size 80,80,80, pixel 3.32, shown
at level 0.719, step 1, values float32
Opened CS_P4_J311_sharp_flip.mrc as #57, grid size 80,80,80, pixel 3.32, shown
at level 0.525, step 1, values float32
Log from Wed May 6 15:19:28 2026UCSF ChimeraX version: 1.11 (2025-12-17)
© 2016-2025 Regents of the University of California. All rights reserved.
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260505_SA-F_B1_workflow.cxs"
Opened cryosparc_P4_J216_class_03_00122_volume_sharp.mrc as #4, grid size
128,128,128, pixel 2.08, shown at level 0.203, step 1, values float32
Opened cryosparc_P4_J216_class_04_00122_volume_sharp.mrc as #5, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J216_class_0_sharp_flip.mrc as #1, grid size 128,128,128, pixel
2.08, shown at level 0.185, step 1, values float32
Opened CS_P4_J216_class_1_sharp_flip.mrc as #2, grid size 128,128,128, pixel
2.08, shown at level 0.203, step 1, values float32
Opened CS_P4_J216_class_2_sharp_flip.mrc as #3, grid size 128,128,128, pixel
2.08, shown at level 0.356, step 1, values float32
Opened CS_P4_J219_sharp_flip.mrc as #6, grid size 80,80,80, pixel 3.32, shown
at level 1.17, step 1, values float32
Opened CS_P4_J244_sharp_flip.mrc as #7, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened cryosparc_P4_J242_class_00_00122_volume_sharp.mrc as #8, grid size
128,128,128, pixel 2.08, shown at level 0.221, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #9, grid size
128,128,128, pixel 2.08, shown at level 0.146, step 1, values float32
Opened cryosparc_P4_J242_class_02_00122_volume_sharp.mrc as #10, grid size
128,128,128, pixel 2.08, shown at level 0.195, step 1, values float32
Opened cryosparc_P4_J242_class_03_00122_volume_sharp.mrc as #11, grid size
128,128,128, pixel 2.08, shown at level 0.15, step 1, values float32
Opened cryosparc_P4_J242_class_04_00122_volume_sharp.mrc as #12, grid size
128,128,128, pixel 2.08, shown at level 0.345, step 1, values float32
Opened cryosparc_P4_J117_class_00_00162_volume_sharp.mrc as #13, grid size
128,128,128, pixel 2.08, shown at level 0.163, step 1, values float32
Opened cryosparc_P4_J117_class_01_00162_volume_sharp.mrc as #14, grid size
128,128,128, pixel 2.08, shown at level 0.187, step 1, values float32
Opened CS_P4_J117_class_02_sharp_flip.mrc as #15, grid size 128,128,128, pixel
2.08, shown at level 0.335, step 1, values float32
Opened cryosparc_P4_J117_class_03_00162_volume_sharp.mrc as #16, grid size
128,128,128, pixel 2.08, shown at level 0.179, step 1, values float32
Opened cryosparc_P4_J117_class_04_00162_volume_sharp.mrc as #17, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J120_sharp_flip.mrc as #18, grid size 80,80,80, pixel 3.32, shown
at level 1.29, step 1, values float32
Opened cryosparc_P4_J169_class_00_00182_volume_sharp.mrc as #19, grid size
128,128,128, pixel 2.08, shown at level 0.156, step 1, values float32
Opened cryosparc_P4_J169_class_01_00182_volume_sharp.mrc as #20, grid size
128,128,128, pixel 2.08, shown at level 0.198, step 1, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #21, grid size
128,128,128, pixel 2.08, shown at level 0.248, step 1, values float32
Opened CS_P4_J169_class_03_sharp_flip.mrc as #22, grid size 128,128,128, pixel
2.08, shown at level 0.271, step 1, values float32
Opened cryosparc_P4_J169_class_04_00182_volume_sharp.mrc as #23, grid size
128,128,128, pixel 2.08, shown at level 0.2, step 1, values float32
Opened CS_P4_J176_NU_sharp_flip.mrc as #24, grid size 80,80,80, pixel 3.32,
shown at level 1.6, step 1, values float32
Opened CS_P4_J255_sharp_flip.mrc as #25, grid size 80,80,80, pixel 3.32, shown
at level 0.649, step 1, values float32
Opened CS_P4_J256_sharp_flip.mrc as #26, grid size 80,80,80, pixel 3.32, shown
at level 1.01, step 1, values float32
Opened CS_P4_J257_sharp_flip.mrc as #27, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened CS_P4_J258_sharp_flip.mrc as #28, grid size 80,80,80, pixel 3.32, shown
at level 0.533, step 1, values float32
Opened CS_P4_J259_sharp_flip.mrc as #29, grid size 80,80,80, pixel 3.32, shown
at level 0.567, step 1, values float32
Opened CS_P4_J267_sharp_flip.mrc as #30, grid size 320,320,320, pixel 0.831,
shown at level 0.134, step 1, values float32
Opened CS_P4_J277_sharp_flip.mrc as #31, grid size 320,320,320, pixel 0.831,
shown at level 0.143, step 1, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc as #32, grid size
320,320,320, pixel 0.831, shown at level 0.0548, step 2, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc as #33, grid size
320,320,320, pixel 0.831, shown at level 0.0508, step 2, values float32
Opened cryosparc_P4_J287_map_locres.mrc as #34, grid size 320,320,320, pixel
0.831, shown at level 3.78, step 2, values float32
Opened cryosparc_P4_J288_map_locres.mrc as #35, grid size 320,320,320, pixel
0.831, shown at level 3.77, step 2, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc z flip as #37, grid size
320,320,320, pixel 0.831, shown at level 0.065, step 1, values float32
Opened cryosparc_P4_J287_map_locres.mrc z flip as #38, grid size 320,320,320,
pixel 0.831, shown at level 3.78, step 1, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc z flip as #39, grid size
320,320,320, pixel 0.831, shown at level 0.0664, step 1, values float32
Opened cryosparc_P4_J288_map_locres.mrc z flip as #40, grid size 320,320,320,
pixel 0.831, shown at level 3.77, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #42, grid size
128,128,128, pixel 2.08, shown at level 0.254, step 1, values float32
Opened CS_P4_J282_sharp_flip.mrc as #36, grid size 320,320,320, pixel 0.831,
shown at level 0.0602, step 2, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #43, grid size
128,128,128, pixel 2.08, shown at level 0.228, step 1, values float32
Opened CS_P4_J295_sharp_flip.mrc as #44, grid size 320,320,320, pixel 0.831,
shown at level 0.0515, step 1, values float32
Opened CS_P4_J296_locres_flip.mrc as #45, grid size 320,320,320, pixel 0.831,
shown at level 8.66, step 1, values float32
Opened CS_P4_J300_sharp_flip.mrc as #46, grid size 320,320,320, pixel 0.831,
shown at level 0.0592, step 1, values float32
Opened CS_P4_J301_locres_flip.mrc as #47, grid size 320,320,320, pixel 0.831,
shown at level 9.68, step 1, values float32
Log from Tue May 5 09:31:57 2026UCSF ChimeraX version: 1.11 (2025-12-17)
© 2016-2025 Regents of the University of California. All rights reserved.
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260503_SA-F_B1_workflow4.cxs"
Opened cryosparc_P4_J216_class_03_00122_volume_sharp.mrc as #4, grid size
128,128,128, pixel 2.08, shown at level 0.203, step 1, values float32
Opened cryosparc_P4_J216_class_04_00122_volume_sharp.mrc as #5, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J216_class_0_sharp_flip.mrc as #1, grid size 128,128,128, pixel
2.08, shown at level 0.185, step 1, values float32
Opened CS_P4_J216_class_1_sharp_flip.mrc as #2, grid size 128,128,128, pixel
2.08, shown at level 0.203, step 1, values float32
Opened CS_P4_J216_class_2_sharp_flip.mrc as #3, grid size 128,128,128, pixel
2.08, shown at level 0.356, step 1, values float32
Opened CS_P4_J219_sharp_flip.mrc as #6, grid size 80,80,80, pixel 3.32, shown
at level 1.17, step 1, values float32
Opened CS_P4_J244_sharp_flip.mrc as #7, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened cryosparc_P4_J242_class_00_00122_volume_sharp.mrc as #8, grid size
128,128,128, pixel 2.08, shown at level 0.221, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #9, grid size
128,128,128, pixel 2.08, shown at level 0.146, step 1, values float32
Opened cryosparc_P4_J242_class_02_00122_volume_sharp.mrc as #10, grid size
128,128,128, pixel 2.08, shown at level 0.195, step 1, values float32
Opened cryosparc_P4_J242_class_03_00122_volume_sharp.mrc as #11, grid size
128,128,128, pixel 2.08, shown at level 0.15, step 1, values float32
Opened cryosparc_P4_J242_class_04_00122_volume_sharp.mrc as #12, grid size
128,128,128, pixel 2.08, shown at level 0.345, step 1, values float32
Opened cryosparc_P4_J117_class_00_00162_volume_sharp.mrc as #13, grid size
128,128,128, pixel 2.08, shown at level 0.163, step 1, values float32
Opened cryosparc_P4_J117_class_01_00162_volume_sharp.mrc as #14, grid size
128,128,128, pixel 2.08, shown at level 0.187, step 1, values float32
Opened CS_P4_J117_class_02_sharp_flip.mrc as #15, grid size 128,128,128, pixel
2.08, shown at level 0.335, step 1, values float32
Opened cryosparc_P4_J117_class_03_00162_volume_sharp.mrc as #16, grid size
128,128,128, pixel 2.08, shown at level 0.179, step 1, values float32
Opened cryosparc_P4_J117_class_04_00162_volume_sharp.mrc as #17, grid size
128,128,128, pixel 2.08, shown at level 0.206, step 1, values float32
Opened CS_P4_J120_sharp_flip.mrc as #18, grid size 80,80,80, pixel 3.32, shown
at level 1.29, step 1, values float32
Opened cryosparc_P4_J169_class_00_00182_volume_sharp.mrc as #19, grid size
128,128,128, pixel 2.08, shown at level 0.156, step 1, values float32
Opened cryosparc_P4_J169_class_01_00182_volume_sharp.mrc as #20, grid size
128,128,128, pixel 2.08, shown at level 0.198, step 1, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #21, grid size
128,128,128, pixel 2.08, shown at level 0.248, step 1, values float32
Opened CS_P4_J169_class_03_sharp_flip.mrc as #22, grid size 128,128,128, pixel
2.08, shown at level 0.271, step 1, values float32
Opened cryosparc_P4_J169_class_04_00182_volume_sharp.mrc as #23, grid size
128,128,128, pixel 2.08, shown at level 0.2, step 1, values float32
Opened CS_P4_J176_NU_sharp_flip.mrc as #24, grid size 80,80,80, pixel 3.32,
shown at level 1.6, step 1, values float32
Opened CS_P4_J255_sharp_flip.mrc as #25, grid size 80,80,80, pixel 3.32, shown
at level 0.649, step 1, values float32
Opened CS_P4_J256_sharp_flip.mrc as #26, grid size 80,80,80, pixel 3.32, shown
at level 1.01, step 1, values float32
Opened CS_P4_J257_sharp_flip.mrc as #27, grid size 80,80,80, pixel 3.32, shown
at level 1.16, step 1, values float32
Opened CS_P4_J258_sharp_flip.mrc as #28, grid size 80,80,80, pixel 3.32, shown
at level 0.533, step 1, values float32
Opened CS_P4_J259_sharp_flip.mrc as #29, grid size 80,80,80, pixel 3.32, shown
at level 0.567, step 1, values float32
Opened CS_P4_J267_sharp_flip.mrc as #30, grid size 320,320,320, pixel 0.831,
shown at level 0.134, step 1, values float32
Opened CS_P4_J277_sharp_flip.mrc as #31, grid size 320,320,320, pixel 0.831,
shown at level 0.143, step 1, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc as #32, grid size
320,320,320, pixel 0.831, shown at level 0.0548, step 2, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc as #33, grid size
320,320,320, pixel 0.831, shown at level 0.0508, step 2, values float32
Opened cryosparc_P4_J287_map_locres.mrc as #34, grid size 320,320,320, pixel
0.831, shown at level 3.78, step 2, values float32
Opened cryosparc_P4_J288_map_locres.mrc as #35, grid size 320,320,320, pixel
0.831, shown at level 3.77, step 2, values float32
Opened cryosparc_P4_J282_005_volume_map_sharp.mrc z flip as #37, grid size
320,320,320, pixel 0.831, shown at level 0.065, step 1, values float32
Opened cryosparc_P4_J287_map_locres.mrc z flip as #38, grid size 320,320,320,
pixel 0.831, shown at level 3.78, step 1, values float32
Opened cryosparc_P4_J285_006_volume_map_sharp.mrc z flip as #39, grid size
320,320,320, pixel 0.831, shown at level 0.0664, step 1, values float32
Opened cryosparc_P4_J288_map_locres.mrc z flip as #40, grid size 320,320,320,
pixel 0.831, shown at level 3.77, step 1, values float32
Opened cryosparc_P4_J242_class_01_00122_volume_sharp.mrc as #42, grid size
128,128,128, pixel 2.08, shown at level 0.254, step 1, values float32
Opened CS_P4_J282_sharp_flip.mrc as #36, grid size 320,320,320, pixel 0.831,
shown at level 0.0602, step 2, values float32
Opened cryosparc_P4_J169_class_02_00182_volume_sharp.mrc as #43, grid size
128,128,128, pixel 2.08, shown at level 0.228, step 1, values float32
Log from Sun May 3 17:29:06 2026UCSF ChimeraX version: 1.11 (2025-12-17)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J216_class_00_00122_volume_sharp.mrc"
Opened cryosparc_P4_J216_class_00_00122_volume_sharp.mrc as #1, grid size
128,128,128, pixel 2.08, shown at level 0.204, step 1, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J216_class_01_00122_volume_sharp.mrc"
Opened cryosparc_P4_J216_class_01_00122_volume_sharp.mrc as #2, grid size
128,128,128, pixel 2.08, shown at level 0.218, step 1, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J216_class_02_00122_volume_sharp.mrc"
Opened cryosparc_P4_J216_class_02_00122_volume_sharp.mrc as #3, grid size
128,128,128, pixel 2.08, shown at level 0.263, step 1, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J216_class_03_00122_volume_sharp.mrc"
Opened cryosparc_P4_J216_class_03_00122_volume_sharp.mrc as #4, grid size
128,128,128, pixel 2.08, shown at level 0.199, step 1, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J216_class_04_00122_volume_sharp.mrc"
Opened cryosparc_P4_J216_class_04_00122_volume_sharp.mrc as #5, grid size
128,128,128, pixel 2.08, shown at level 0.235, step 1, values float32
> lighting soft
> set bgColor white
> hide #!5 models
> hide #!4 models
Deeleted thousands of lines to meet Trac size limit. Tom
> view matrix models #43,1,0,0,-10.922,0,1,0,105.75,0,0,1,25.23
> ui mousemode right "rotate selected models"
> view matrix models
> #43,0.053361,-0.96815,-0.24461,270.41,-0.10024,-0.24891,0.96332,141.36,-0.99353,-0.026885,-0.11033,315.47
> ui mousemode right "translate selected models"
> view matrix models
> #43,0.053361,-0.96815,-0.24461,276.43,-0.10024,-0.24891,0.96332,50.344,-0.99353,-0.026885,-0.11033,257.37
> ui mousemode right "rotate selected models"
> view matrix models
> #43,0.25016,-0.91768,-0.30868,252.37,-0.0074281,-0.32063,0.94718,48.872,-0.96818,-0.23465,-0.087026,276.42
> ui mousemode right "translate selected models"
> view matrix models
> #43,0.25016,-0.91768,-0.30868,252.17,-0.0074281,-0.32063,0.94718,49.119,-0.96818,-0.23465,-0.087026,280.28
> view matrix models
> #43,0.25016,-0.91768,-0.30868,245.18,-0.0074281,-0.32063,0.94718,41.479,-0.96818,-0.23465,-0.087026,278.46
> view matrix models
> #43,0.25016,-0.91768,-0.30868,244.24,-0.0074281,-0.32063,0.94718,46.881,-0.96818,-0.23465,-0.087026,278.05
> select add #42
4 models selected
> select subtract #43
2 models selected
> view matrix models
> #42,0.15189,-0.98482,-0.084022,248.26,-0.056394,-0.093504,0.99402,10.768,-0.98679,-0.14625,-0.069741,272.27
> select subtract #42
Nothing selected
> color #36 #99BFE5
> hide #!42 models
> select add #43
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #43,0.073784,-0.55439,0.82898,66.918,0.0052521,0.83145,0.55558,-43.45,-0.99726,-0.036639,0.064259,236.72
> ui mousemode right "translate selected models"
> view matrix models
> #43,0.073784,-0.55439,0.82898,82.905,0.0052521,0.83145,0.55558,-39.115,-0.99726,-0.036639,0.064259,236.78
> select subtract #43
Nothing selected
> volume #36 level 0.0602
> select add #43
2 models selected
> view matrix models
> #43,0.073784,-0.55439,0.82898,84.941,0.0052521,0.83145,0.55558,-38.546,-0.99726,-0.036639,0.064259,236.53
> view matrix models
> #43,0.073784,-0.55439,0.82898,84.833,0.0052521,0.83145,0.55558,-38.074,-0.99726,-0.036639,0.064259,236.34
> volume #43 level 0.1902
> color #43 #b2b2ff80 models
> volume #43 level 0.2283
> select add #40
4 models selected
> select subtract #40
2 models selected
> select subtract #43
Nothing selected
> color #43 #ffffb280 models
> color #43 #b2b2ff80 models
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260503_SA-F_B1_workflow3.cxs"
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_cryosparc_P4_J243_003_volume_map_35_TMD_regions_resampled.mrc"
Opened
cryosparc_P4_cryosparc_P4_J243_003_volume_map_35_TMD_regions_resampled.mrc as
#44, grid size 80,80,80, pixel 3.32, shown at level 0.324, step 1, values
float32
> close #44
> save CS_P4_J282_show_mask_sharp.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260503_SA-F_B1_workflow4.cxs"
——— End of log from Sun May 3 17:29:06 2026 ———
> view name session-start
opened ChimeraX session
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J295_006_volume_map_sharp.mrc"
Opened cryosparc_P4_J295_006_volume_map_sharp.mrc as #44, grid size
320,320,320, pixel 0.831, shown at level 0.0361, step 2, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J296_map_locres.mrc"
Opened cryosparc_P4_J296_map_locres.mrc as #45, grid size 320,320,320, pixel
0.831, shown at level 8.66, step 2, values float32
> hide #!43 models
> hide #!36 models
> hide #!45 models
> show #!45 models
> hide #!45 models
> volume flip #44
Opened cryosparc_P4_J295_006_volume_map_sharp.mrc z flip as #46, grid size
320,320,320, pixel 0.831, shown at step 1, values float32
> volume flip #45
Opened cryosparc_P4_J296_map_locres.mrc z flip as #47, grid size 320,320,320,
pixel 0.831, shown at step 1, values float32
> close #45
> close #44
> rename #46 CS_P4_J295_sharp_flip id #44
> save CS_P4_J295_sharp_flip.mrc #44
> rename #47 CS_P4_J296_locres_flip id #45
> save CS_P4_J296_locres_flip.mrc #45
> ui tool show "Surface Color"
> hide #!45 models
> color sample #44.1 map #45 palette #ffb17f:#527dea:#99bfe5:#fff6c0:#f4fff3
> outsideColor #808080
Map values for surface "surface": minimum 0, mean 4.132, maximum 48.35
> show #41 models
> volume #44 level 0.0515
> color sample #44.1 map #45 palette
> 1,#ffb17f:2,#527dea:3,#99bfe5:4,#fff6c0:5,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#ffb17f:3,#527dea:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#ffb17f:3,#527dea:4,#ffb17f:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#527dea:3,#99bfe5:4,#ffb17f:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> key #527dea:2 #99bfe5:3 #ffb17f:4 #fff6c0:5 #f4fff3:6 showTool true
> ui mousemode right "color key"
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#527dea outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> key #f4fff3:2 #fff6c0:3 #ffb17f:4 #99bfe5:5 #527dea:6 showTool true
> ui mousemode right "color key"
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#527dd6 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#46a2de outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#4d8fde outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#94aec1 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#a78bc1 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#c1a77f outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#f4fff3:3,#fff6c0:4,#ffb17f:5,#99bfe5:6,#89b3c1 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#ffb17f:3,#527dea:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> key #ffb17f:2 #527dea:3 #99bfe5:4 #fff6c0:5 #f4fff3:6 showTool true
> ui mousemode right "color key"
> color sample #44.1 map #45 palette
> 2,#ffb17f:3,#2c98ee:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> color sample #44.1 map #45 palette
> 2,#ffb17f:3,#4979d3:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 3.583, maximum 39.22
> save CS_P4_J295_locres_sharp.png supersample 3 transparentBackground true
Cell requested for row 0 is out of bounds for table with 6 rows! Resizing
table model.
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260505_SA-F_B1_workflow.cxs"
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J300_005_volume_map_sharp.mrc"
Opened cryosparc_P4_J300_005_volume_map_sharp.mrc as #46, grid size
320,320,320, pixel 0.831, shown at level 0.0375, step 2, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J301_map_locres.mrc"
Opened cryosparc_P4_J301_map_locres.mrc as #47, grid size 320,320,320, pixel
0.831, shown at level 9.68, step 2, values float32
> hide #!44 models
> hide #!47 models
> volume flip #46
Opened cryosparc_P4_J300_005_volume_map_sharp.mrc z flip as #48, grid size
320,320,320, pixel 0.831, shown at step 1, values float32
> volume flip #47
Opened cryosparc_P4_J301_map_locres.mrc z flip as #49, grid size 320,320,320,
pixel 0.831, shown at step 1, values float32
> close #46
> close #47
> rename #48 CS_P4_J300_sharp_flip id #46
> rename #49 CS_P4_J301_locres_flip id #47
> save CS_P4_J301_locres_flip.mrc #47
> save CS_P4_J300_sharp_flip.mrc #46
> color sample #46.1 map #47 palette
> 2,#ffb17f:3,#4979d3:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 0, mean 4.498, maximum 44.88
> hide #!47 models
> volume #46 level 0.03399
> volume #46 level 0.06962
> volume #46 level 0.05919
> save CS_P4_J300_locres_sharp.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260505_SA-F_B1_workflow.cxs"
——— End of log from Tue May 5 09:31:57 2026 ———
> view name session-start
opened ChimeraX session
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J302_002_volume_map_sharp.mrc"
Opened cryosparc_P4_J302_002_volume_map_sharp.mrc as #48, grid size 80,80,80,
pixel 3.32, shown at level 0.658, step 1, values float32
> select add #48
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #48,0.064602,0.97911,0.19278,-26.266,0.98732,-0.034646,-0.1549,22.036,-0.14498,0.20034,-0.96894,229.94
> volume flip #48
Opened cryosparc_P4_J302_002_volume_map_sharp.mrc z flip as #49, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #48
> rename #49 rename
> rename #49 CS_P4_J302_sharp_flip id #48
> save CS_P4_J302_sharp_flip.mrc #48
> select add #48
2 models selected
> view matrix models
> #48,-0.56486,-0.82475,0.026783,324.58,0.77395,-0.54076,-0.32951,143.72,0.28625,-0.1654,0.94377,-52.222
> hide #41 models
> hide #!46 models
> show #!47 models
> hide #!47 models
> show #!45 models
> hide #!45 models
> show #!43 models
> hide #!43 models
> show #!39 models
> ui mousemode right "translate selected models"
> view matrix models
> #48,-0.56486,-0.82475,0.026783,319.51,0.77395,-0.54076,-0.32951,139.04,0.28625,-0.1654,0.94377,-3.8614
> view matrix models
> #48,-0.56486,-0.82475,0.026783,321.32,0.77395,-0.54076,-0.32951,140.03,0.28625,-0.1654,0.94377,-10.821
> fitmap $48 inmap #39
Missing or invalid "atomsOrMap" argument: invalid objects specifier
> fitmap #48 inMap #39
Fit map CS_P4_J302_sharp_flip.mrc in map
cryosparc_P4_J285_006_volume_map_sharp.mrc z flip using 5112 points
correlation = 0.3608, correlation about mean = 0.02111, overlap = 103.8
steps = 76, shift = 4.71, angle = 3.71 degrees
Position of CS_P4_J302_sharp_flip.mrc (#48) relative to
cryosparc_P4_J285_006_volume_map_sharp.mrc z flip (#39) coordinates:
Matrix rotation and translation
-0.54436883 -0.83749052 0.04766738 317.13056079
0.79848148 -0.53475206 -0.27652762 129.04232256
0.25707950 -0.11247150 0.95982304 -11.58663120
Axis 0.09898047 -0.12634523 0.98703584
Axis point 124.28808276 149.04371086 0.00000000
Rotation angle (degrees) 124.03152255
Shift along axis 3.64942894
> ui mousemode right "rotate selected models"
> view matrix models
> #48,-0.38435,0.91427,-0.12797,86.018,-0.92117,-0.38898,-0.012326,307,-0.061046,0.11314,0.9917,-2.8083
> fitmap #48 inMap #39
Fit map CS_P4_J302_sharp_flip.mrc in map
cryosparc_P4_J285_006_volume_map_sharp.mrc z flip using 5112 points
correlation = 0.623, correlation about mean = 0.1973, overlap = 254
steps = 104, shift = 5.55, angle = 8.62 degrees
Position of CS_P4_J302_sharp_flip.mrc (#48) relative to
cryosparc_P4_J285_006_volume_map_sharp.mrc z flip (#39) coordinates:
Matrix rotation and translation
-0.49090927 0.85957769 -0.14189522 105.36638005
-0.85910240 -0.50468247 -0.08508012 328.20339808
-0.14474501 0.08013591 0.98621858 12.70754555
Axis 0.09568836 0.00165051 -0.99540997
Axis point 147.88121154 133.69042072 0.00000000
Rotation angle (degrees) 120.31054935
Shift along axis -2.02517664
> select subtract #48
Nothing selected
> volume #48 level 0.8066
> hide #!48 models
> show #!48 models
> hide #!39 models
> show #!40 models
> hide #!40 models
> show #!46 models
> hide #!46 models
> show #!46 models
> hide #!46 models
> volume #48 level 0.6121
> show #!24 models
> hide #!24 models
> color #48 #99BFE5
> hide #!48 models
> show #!48 models
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J303_003_volume_map_sharp.mrc"
Opened cryosparc_P4_J303_003_volume_map_sharp.mrc as #49, grid size 80,80,80,
pixel 3.32, shown at level 0.57, step 1, values float32
> select add #49
2 models selected
> view matrix models
> #49,0.53874,0.84077,0.053573,-61.438,0.83514,-0.54134,0.097405,87.116,0.1109,-0.0077344,-0.9938,260.56
> view matrix models
> #49,0.53215,0.84494,0.053856,-61.154,0.83957,-0.53484,0.095262,85.896,0.10929,-0.0054773,-0.99399,260.49
> view matrix models
> #49,-0.8763,-0.44891,0.17485,296.18,-0.45964,0.88777,-0.024369,82.131,-0.14428,-0.10172,-0.98429,307.41
> volume flip #49
Opened cryosparc_P4_J303_003_volume_map_sharp.mrc z flip as #50, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #49
> rename #50 CS_P4_J303_sharp_flip id #49
> save CS_P4_J303_sharp_flip.mrc #49
> select add #49
2 models selected
> view matrix models
> #49,-0.44927,0.88595,-0.11509,87.376,-0.86051,-0.46376,-0.21085,349.13,-0.24018,0.0043123,0.97072,61.749
> ui mousemode right "translate selected models"
> view matrix models
> #49,-0.44927,0.88595,-0.11509,93.572,-0.86051,-0.46376,-0.21085,352.06,-0.24018,0.0043123,0.97072,37.843
> fitmap #49 inMap 348
Invalid "inMap" argument: invalid density map specifier
> fitmap #49 inMap #48
Fit map CS_P4_J303_sharp_flip.mrc in map CS_P4_J302_sharp_flip.mrc using 5118
points
correlation = 0.8483, correlation about mean = 0.4386, overlap = 3011
steps = 68, shift = 10.7, angle = 7.19 degrees
Position of CS_P4_J303_sharp_flip.mrc (#49) relative to
CS_P4_J302_sharp_flip.mrc (#48) coordinates:
Matrix rotation and translation
0.99996126 -0.00401528 0.00783497 -1.22617333
0.00399514 0.99998870 0.00258400 -1.26181412
-0.00784526 -0.00255260 0.99996598 1.34185977
Axis -0.28004899 0.85489100 0.43673098
Axis point 178.64594040 0.00000000 162.72002408
Rotation angle (degrees) 0.52546068
Shift along axis -0.14929320
> select subtract #49
Nothing selected
> hide #!48 models
> color #49 #FCEDFF
> hide #!49 models
> show #!49 models
> volume #49 level 0.5753
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J304_002_volume_map_sharp.mrc"
Opened cryosparc_P4_J304_002_volume_map_sharp.mrc as #50, grid size 80,80,80,
pixel 3.32, shown at level 1.66, step 1, values float32
> hide #!49 models
> select add #50
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #50,0.25626,0.96633,0.023099,-33.544,0.9662,-0.25539,-0.035012,44.222,-0.027934,0.03129,-0.99912,256.23
> volume #50 level 2.579
> select subtract #50
Nothing selected
> volume #50 level 1.975
> volume flip #50
Opened cryosparc_P4_J304_002_volume_map_sharp.mrc z flip as #51, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #50
> rename #51 CS_P4_J304_sharp_flip id #50
> save CS_P4_J304_sharp_flip.mrc #50
> select add #50
2 models selected
> show #!49 models
> view matrix models
> #50,0.25432,0.96619,0.042346,-35.759,0.96711,-0.25431,-0.0057645,40.158,0.0051995,0.042419,-0.99909,250.22
> view matrix models
> #50,-0.77557,0.61543,-0.14049,175.22,-0.61485,-0.78688,-0.052719,333.03,-0.143,0.045495,0.98868,11.993
> color #50 #FCEDFF
> select subtract #50
Nothing selected
> hide #!49 models
> hide #!50 models
> show #!50 models
> volume #50 level 1.954
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J305_003_volume_map_sharp.mrc"
Opened cryosparc_P4_J305_003_volume_map_sharp.mrc as #51, grid size 80,80,80,
pixel 3.32, shown at level 0.569, step 1, values float32
> hide #!50 models
> select add #51
2 models selected
> view matrix models
> #51,-0.9391,-0.22026,0.26379,268.58,-0.1463,0.9508,0.27307,-8.1662,-0.31096,0.21785,-0.92512,264.01
> volume flip #51
Opened cryosparc_P4_J305_003_volume_map_sharp.mrc z flip as #52, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #51
> rename #52 CS_P4_J305_sharp_flip id #51
> save CS_P4_J305_sharp_flip.mrc #51
> color #51 #FCEDFF
> show #!50 models
> select add #51
2 models selected
> view matrix models
> #51,0.99548,-0.078687,0.053201,5.068,0.073705,0.99322,0.089881,-20.578,-0.059913,-0.085553,0.99453,15.159
> fitmap #51 inMap #50
Fit map CS_P4_J305_sharp_flip.mrc in map CS_P4_J304_sharp_flip.mrc using 5112
points
correlation = 0.7769, correlation about mean = 0.3462, overlap = 4325
steps = 92, shift = 6.39, angle = 27.1 degrees
Position of CS_P4_J305_sharp_flip.mrc (#51) relative to
CS_P4_J304_sharp_flip.mrc (#50) coordinates:
Matrix rotation and translation
-0.48191930 -0.86211205 -0.15657780 337.25915719
0.86174903 -0.49867166 0.09335524 70.84333299
-0.15856359 -0.08994107 0.98324371 36.25215794
Axis -0.10573285 0.00114549 0.99439391
Axis point 149.95468753 133.49561797 0.00000000
Rotation angle (degrees) 119.91228641
Shift along axis 0.47070508
> select subtract #51
Nothing selected
> hide #!50 models
> hide #!51 models
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J306_002_volume_map_sharp.mrc"
Opened cryosparc_P4_J306_002_volume_map_sharp.mrc as #52, grid size 80,80,80,
pixel 3.32, shown at level 0.89, step 1, values float32
> select add #52
2 models selected
> view matrix models
> #52,0.64736,0.71151,-0.27328,-15.881,0.69766,-0.69754,-0.16345,155.65,-0.30692,-0.084848,-0.94795,287.9
> volume flip #52
Opened cryosparc_P4_J306_002_volume_map_sharp.mrc z flip as #53, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #52
> select add #53
2 models selected
> show #!51 models
> view matrix models
> #53,-0.54969,0.82414,-0.13652,114.28,-0.83504,-0.54665,0.062273,314.18,-0.023306,0.14823,0.98868,-59.023
> ui mousemode right "translate selected models"
> view matrix models
> #53,-0.54969,0.82414,-0.13652,112.71,-0.83504,-0.54665,0.062273,313.11,-0.023306,0.14823,0.98868,-22.329
> fitmap #53 inMap #51
Fit map cryosparc_P4_J306_002_volume_map_sharp.mrc z flip in map
CS_P4_J305_sharp_flip.mrc using 5118 points
correlation = 0.8696, correlation about mean = 0.2872, overlap = 4918
steps = 72, shift = 6.47, angle = 20.6 degrees
Position of cryosparc_P4_J306_002_volume_map_sharp.mrc z flip (#53) relative
to CS_P4_J305_sharp_flip.mrc (#51) coordinates:
Matrix rotation and translation
-0.48951817 0.85648171 -0.16374082 109.67271887
-0.85572951 -0.50794021 -0.09860917 331.28158536
-0.16762749 0.09184687 0.98156263 12.77250071
Axis 0.11055185 0.00225605 -0.99386780
Axis point 150.74970822 134.14339059 0.00000000
Rotation angle (degrees) 120.52723515
Shift along axis 0.17773418
> select subtract #53
Nothing selected
> hide #!51 models
> rename #53 CS_P4_J306_sharp_flip id #52
> save CS_P4_J306_sharp_flip.mrc #52
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J307_002_volume_map_sharp.mrc"
Opened cryosparc_P4_J307_002_volume_map_sharp.mrc as #53, grid size 80,80,80,
pixel 3.32, shown at level 0.417, step 1, values float32
> hide #!52 models
> select add #53
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #53,-0.97802,-0.15767,0.13647,275.15,-0.15325,0.98728,0.042392,17.478,-0.14141,0.020547,-0.98974,260.92
> volume flip #53
Opened cryosparc_P4_J307_002_volume_map_sharp.mrc z flip as #54, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #53
> select add #54
2 models selected
> show #!51 models
> view matrix models
> #54,-0.83454,0.54308,0.09272,165.84,-0.53719,-0.83947,0.081916,314.21,0.12232,0.018554,0.99232,-51.868
> ui mousemode right "translate selected models"
> view matrix models
> #54,-0.83454,0.54308,0.09272,166.01,-0.53719,-0.83947,0.081916,312.6,0.12232,0.018554,0.99232,-21.112
> fitmap #54 inMap #51
Fit map cryosparc_P4_J307_002_volume_map_sharp.mrc z flip in map
CS_P4_J305_sharp_flip.mrc using 5118 points
correlation = 0.9157, correlation about mean = 0.3086, overlap = 1346
steps = 92, shift = 8.03, angle = 16.7 degrees
Position of cryosparc_P4_J307_002_volume_map_sharp.mrc z flip (#54) relative
to CS_P4_J305_sharp_flip.mrc (#51) coordinates:
Matrix rotation and translation
-0.49196091 0.85478647 -0.16527113 110.59805296
-0.85414546 -0.51062861 -0.09845785 330.98838770
-0.16855261 0.09272817 0.98132130 13.11747971
Axis 0.11118076 0.00190829 -0.99379837
Axis point 150.81392912 133.83273648 0.00000000
Rotation angle (degrees) 120.70607669
Shift along axis -0.10813355
> select subtract #54
Nothing selected
> rename #54 CS_P4_J307_sharp_flip id #53
> save CS_P4_J307_sharp_flip.mrc #53
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J308_003_volume_map_sharp.mrc"
Opened cryosparc_P4_J308_003_volume_map_sharp.mrc as #54, grid size 80,80,80,
pixel 3.32, shown at level 0.487, step 1, values float32
> hide #!51 models
> hide #!53 models
> select add #54
2 models selected
> view matrix models #54,1,0,0,-2.2085,0,1,0,5.106,0,0,1,17.329
> ui mousemode right "rotate selected models"
> view matrix models
> #54,-0.97907,-0.098429,0.17813,263.99,-0.078474,0.99017,0.11581,3.2524,-0.18778,0.099408,-0.97717,270.12
> volume flip #54
Opened cryosparc_P4_J308_003_volume_map_sharp.mrc z flip as #55, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #54
> select add #55
2 models selected
> show #!53 models
> view matrix models
> #55,-0.032009,-0.99944,0.0094019,279.03,0.99475,-0.030941,0.097574,-4.0943,-0.097229,0.012476,0.99518,-8.8511
> ui mousemode right "translate selected models"
> view matrix models
> #55,-0.032009,-0.99944,0.0094019,275.5,0.99475,-0.030941,0.097574,4.3503,-0.097229,0.012476,0.99518,10.879
> fitmap #55 inMap #53
Fit map cryosparc_P4_J308_003_volume_map_sharp.mrc z flip in map
CS_P4_J307_sharp_flip.mrc using 5116 points
correlation = 0.9635, correlation about mean = 0.3444, overlap = 1309
steps = 80, shift = 11, angle = 8.02 degrees
Position of cryosparc_P4_J308_003_volume_map_sharp.mrc z flip (#55) relative
to CS_P4_J307_sharp_flip.mrc (#53) coordinates:
Matrix rotation and translation
-0.47079667 0.87008681 -0.14594324 102.09450866
-0.87101131 -0.48471046 -0.07996914 326.37268834
-0.14032031 0.08946901 0.98605553 9.07494900
Axis 0.09685875 -0.00321433 -0.99529295
Axis point 148.07793015 132.95152312 0.00000000
Rotation angle (degrees) 118.99450917
Shift along axis -0.19255539
> select subtract #55
Nothing selected
> hide #!53 models
> color #55 #fcedffff models
> rename #55 CS_P4_J308_sharp_flip id #54
> save CS_P4_J308_sharp_flip.mrc #54
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J309_002_volume_map_sharp.mrc"
Opened cryosparc_P4_J309_002_volume_map_sharp.mrc as #55, grid size 80,80,80,
pixel 3.32, shown at level 0.427, step 1, values float32
> hide #!54 models
> select add #55
2 models selected
> show #!54 models
> ui mousemode right "rotate selected models"
> view matrix models
> #55,0.72482,-0.68817,-0.032661,133.9,-0.68882,-0.72298,-0.053201,331.74,0.012998,0.061058,-0.99805,234.36
> hide #!54 models
> view matrix models
> #55,-0.98503,0.14104,0.099091,242.98,0.14443,0.98912,0.027904,-21.89,-0.094078,0.041798,-0.99469,251.29
> volume flip #55
Opened cryosparc_P4_J309_002_volume_map_sharp.mrc z flip as #56, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #55
> select add #56
2 models selected
> show #!54 models
> view matrix models
> #56,-0.63923,0.76709,0.054278,117.91,-0.76391,-0.64153,0.069883,315.42,0.088428,0.0032076,0.99608,-48.086
> ui mousemode right "translate selected models"
> view matrix models
> #56,-0.63923,0.76709,0.054278,118.17,-0.76391,-0.64153,0.069883,313.6,0.088428,0.0032076,0.99608,-18.356
> fitmap #56 inMap #54
Fit map cryosparc_P4_J309_002_volume_map_sharp.mrc z flip in map
CS_P4_J308_sharp_flip.mrc using 5111 points
correlation = 0.9585, correlation about mean = 0.3571, overlap = 1283
steps = 104, shift = 10.8, angle = 17.1 degrees
Position of cryosparc_P4_J309_002_volume_map_sharp.mrc z flip (#56) relative
to CS_P4_J308_sharp_flip.mrc (#54) coordinates:
Matrix rotation and translation
-0.48831434 -0.86312376 -0.12871093 333.56502617
0.86459679 -0.49852007 0.06285020 75.43057430
-0.11841248 -0.08059241 0.98968852 28.18171624
Axis -0.08273806 -0.00594017 0.99655362
Axis point 146.06051902 134.60897835 0.00000000
Rotation angle (degrees) 119.90563147
Shift along axis 0.03799683
> select subtract #56
Nothing selected
> hide #!54 models
> hide #!56 models
> show #!56 models
> color #56 #fcedffff models
> rename #56 CS_P4_J309_sharp_flip id #55
> save CS_P4_J309_sharp_flip.mrc #55
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J310_003_volume_map_sharp.mrc"
Opened cryosparc_P4_J310_003_volume_map_sharp.mrc as #56, grid size 80,80,80,
pixel 3.32, shown at level 0.683, step 1, values float32
> volume flip #56
Opened cryosparc_P4_J310_003_volume_map_sharp.mrc z flip as #57, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #56
> fitmap #56 inMap #52
No atoms or maps for #56
> fitmap #57 inMap #52
Fit map cryosparc_P4_J310_003_volume_map_sharp.mrc z flip in map
CS_P4_J306_sharp_flip.mrc using 5115 points
correlation = 0.769, correlation about mean = 0.3701, overlap = 4288
steps = 88, shift = 5.42, angle = 22.7 degrees
Position of cryosparc_P4_J310_003_volume_map_sharp.mrc z flip (#57) relative
to CS_P4_J306_sharp_flip.mrc (#52) coordinates:
Matrix rotation and translation
-0.48166864 -0.85899522 -0.17355843 339.66736714
0.86194402 -0.50013127 0.08319372 72.72621082
-0.15826501 -0.10952585 0.98130335 38.95738038
Axis -0.11128512 -0.00883113 0.99374928
Axis point 150.89500052 135.18260516 0.00000000
Rotation angle (degrees) 120.01642768
Shift along axis 0.27169032
> hide #!55 models
> show #!52 models
> color #57 #fcedffff models
> hide #!52 models
> save #57 CS_P4_J310_sharp_flip id #56
Cannot determine format for '#57'
> rename #57 CS_P4_J310_sharp_flip id #56
> save CS_P4_J310_sharp_flip.mrc #56
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J311_004_volume_map_sharp.mrc"
Opened cryosparc_P4_J311_004_volume_map_sharp.mrc as #57, grid size 80,80,80,
pixel 3.32, shown at level 0.525, step 1, values float32
> volume flip #57
Opened cryosparc_P4_J311_004_volume_map_sharp.mrc z flip as #58, grid size
80,80,80, pixel 3.32, shown at step 1, values float32
> close #57
> color #58 #fcedffff models
> rename #58 CS_P4_J311_sharp_flip id #57
> save CS_P4_J311_sharp_flip.mrc #57
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260506_SA-F_B1_workflow.cxs"
> view P1
> hide #!57 models
> hide #!56 models
> show #!47 models
> hide #!47 models
> show #!48 models
> save CS_P4_J302_NU_sharp.png supersample 3 transparentBackground true
> hide #!48 models
> show #!49 models
> save CS_P4_J303_NU_sharp.png supersample 3 transparentBackground true
> hide #!49 models
> show #!50 models
> save CS_P4_J304_NU_sharp.png supersample 3 transparentBackground true
> hide #!50 models
> show #!51 models
> save CS_P4_J305_NU_sharp.png supersample 3 transparentBackground true
> hide #!51 models
> show #!52 models
> volume #52 level 1.034
> save CS_P4_J306_NU_sharp.png supersample 3 transparentBackground true
> hide #!52 models
> show #!53 models
> color #53 #fcedffff models
> save CS_P4_J307_NU_sharp.png supersample 3 transparentBackground true
> hide #!53 models
> show #!54 models
> save CS_P4_J308_NU_sharp.png supersample 3 transparentBackground true
> hide #!54 models
> show #!55 models
> save CS_P4_J309_NU_sharp.png supersample 3 transparentBackground true
> hide #!55 models
> show #!56 models
> volume #56 level 0.7192
> save CS_P4_J310_NU_sharp.png supersample 3 transparentBackground true
> hide #!56 models
> show #!57 models
> save CS_P4_J311_NU_sharp.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260506_SA-F_B1_workflow.cxs"
——— End of log from Wed May 6 15:19:28 2026 ———
> view name session-start
opened ChimeraX session
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J323_006_volume_map_sharp.mrc"
Opened cryosparc_P4_J323_006_volume_map_sharp.mrc as #58, grid size
320,320,320, pixel 0.831, shown at level 0.0345, step 2, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J324_map_locres.mrc"
Opened cryosparc_P4_J324_map_locres.mrc as #59, grid size 320,320,320, pixel
0.831, shown at level 8.89, step 2, values float32
> hide #!57 models
> hide #!58 models
> show #!58 models
> hide #!59 models
> show #!59 models
> volume flip #58
Opened cryosparc_P4_J323_006_volume_map_sharp.mrc z flip as #60, grid size
320,320,320, pixel 0.831, shown at step 1, values float32
> volume flip #59
Opened cryosparc_P4_J324_map_locres.mrc z flip as #61, grid size 320,320,320,
pixel 0.831, shown at step 1, values float32
> close #58
> close #59
> rename #60 CS_P4_J323_sharp_flip #58
Expected a keyword
> rename #60 CS_P4_J323_sharp_flip id #58
> save CS_P4_J323_sharp_flip.mrc #58
> rename CS_P4_J324_map_locres_flip id #59
Missing or invalid "models" argument: invalid models specifier
> rename #61 CS_P4_J324_map_locres_flip id #59
> save CS_P4_J324_map_locres_flip.mrc #59
> hide #!58 models
> show #!58 models
> hide #!59 models
> volume #59 level 9.377
> hide #!59 models
> volume #58 level 0.05889
> show #!59 models
> volume #59 level 3.695
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow.cxs"
> ui tool show "Surface Color"
> hide #!58 models
> show #!58 models
> hide #!59 models
> color radial #58.1 palette #ffb17f:#4979d3:#99bfe5:#fff6c0:#f4fff3
> color sample #58.1 map #59 palette
> 166.9,#ffb17f:198,#4979d3:229.1,#99bfe5:260.3,#fff6c0:291.4,#f4fff3
> outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.552, maximum 44.59
> color sample #58.1 map #59 palette
> 2,#ffb17f:3,#4979d3:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.552, maximum 44.59
> show #!59 models
> hide #!58 models
> hide #!59 models
> show #!59 models
> show #!58 models
> hide #!59 models
> show #!59 models
> hide #!59 models
> volume #58 level 0.0634
> volume #58 level 0.04264
> volume #58 level 0.07693
> volume #58 level 0.06069
> volume #58 level 0.07152
> volume #58 level 0.05889
> volume #58 level 0.05167
> volume #58 level 0.06159
> key #ffb17f:2 #4979d3:3 #99bfe5:4 #fff6c0:5 #f4fff3:6 showTool true
> ui mousemode right "color key"
> key pos 0.82265,0.196044 size 0.0692066,0.202924
> ui mousemode right translate
> ui mousemode right "color key"
> key pos 0.802943,0.231339 size 0.039822,0.144632
> key #ffb17f:2 #4979d3:3 #99bfe5:4 #fff6c0:5 #f4fff3:6 showTool true
> key pos 0.836801,0.165731 size 0.0516869,0.238605
> show #41 models
> key pos 0.820538,0.190547 size 0.0458442,0.242723
> save CS_P4_J323_sharp_flip.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow1.cxs"
> color sample #58.1 map #59 palette
> 2,#ffb17f:3,#169bd3:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.532, maximum 44.61
> color sample #58.1 map #59 palette
> 2,#ffb17f:3,#46c7f6:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.532, maximum 44.61
> color sample #58.1 map #59 palette
> 2,#ffb17f:3,#11b6e1:4,#99bfe5:5,#fff6c0:6,#f4fff3 outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.532, maximum 44.61
> key #ffb17f:2 #11b6e1:3 #99bfe5:4 #fff6c0:5 #f4fff3:6 showTool true
> ui mousemode right "color key"
> color sample #58.1 map #59 palette
> 2,#ffb17f:3,#11b6e1:4,#99bfe5:5,#fff6c0:6,#ffb17f outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.532, maximum 44.61
> key #ffb17f:2 #11b6e1:3 #99bfe5:4 #fff6c0:5 #ffb17f:6 showTool true
> color sample #58.1 map #59 palette
> 2,#13097f:3,#11b6e1:4,#99bfe5:5,#fff6c0:6,#ffb17f outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.532, maximum 44.61
> key #13097f:2 #11b6e1:3 #99bfe5:4 #fff6c0:5 #ffb17f:6 showTool true
> save CS_P4_J323_sharp_flip2.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow2.cxs"
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J329_005_volume_map_sharp.mrc"
Opened cryosparc_P4_J329_005_volume_map_sharp.mrc as #60, grid size
320,320,320, pixel 0.831, shown at level 0.0384, step 2, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J330_map_locres.mrc"
Opened cryosparc_P4_J330_map_locres.mrc as #61, grid size 320,320,320, pixel
0.831, shown at level 9.71, step 2, values float32
> hide #!58 models
> hide #!60 models
> show #!60 models
> hide #!61 models
> volume flip #60
Opened cryosparc_P4_J329_005_volume_map_sharp.mrc z flip as #62, grid size
320,320,320, pixel 0.831, shown at step 1, values float32
> volume flip #61
Opened cryosparc_P4_J330_map_locres.mrc z flip as #63, grid size 320,320,320,
pixel 0.831, shown at step 1, values float32
> close #60
> close #61
> rename #62 CS_P4_J329_sharp_flip id #60
> save CS_P4_J329_sharp_flip.mrc #60
> rename #63 rename
> rename #63 CS_P4_J330_locres_flip id #61
> save CS_P4_J330_locres_flip.mrc #61
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow3.cxs"
> hide #!61 models
> color sample #58.1 map #59 palette
> 2,#13097f:3,#11b6e1:4,#99bfe5:5,#fff6c0:6,#ffb17f outsideColor #808080
Map values for surface "surface": minimum 2.944, mean 3.532, maximum 44.61
> color sample #60.1 map #61 palette
> 2,#13097f:3,#11b6e1:4,#99bfe5:5,#fff6c0:6,#ffb17f outsideColor #808080
Map values for surface "surface": minimum 0, mean 4.466, maximum 46.71
> volume #60 level 0.06443
> key #13097f:2 #11b6e1:3 #99bfe5:4 #fff6c0:5 #ffb17f:6 showTool true
> ui mousemode right "color key"
> volume #60 level 0.05663
> save CS_P4_J329_locres_sharp.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow3.cxs"
——— End of log from Thu May 7 15:58:17 2026 ———
> view name session-start
opened ChimeraX session
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J300_005_volume_map_sharp.mrc"
Opened cryosparc_P4_J300_005_volume_map_sharp.mrc as #62, grid size
320,320,320, pixel 0.831, shown at level 0.0375, step 2, values float32
> open "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/cryosparc_P4_J301_map_locres.mrc"
Opened cryosparc_P4_J301_map_locres.mrc as #63, grid size 320,320,320, pixel
0.831, shown at level 9.68, step 2, values float32
> hide #!60 models
> hide #!63 models
> volume flip #62
Opened cryosparc_P4_J300_005_volume_map_sharp.mrc z flip as #64, grid size
320,320,320, pixel 0.831, shown at step 1, values float32
> volume flip #63
Opened cryosparc_P4_J301_map_locres.mrc z flip as #65, grid size 320,320,320,
pixel 0.831, shown at step 1, values float32
> close #62
> close #63
> rename #64 CS_P4_J300_sharp_flip id #62
> save CS_P4_J300_sharp_flip.mrc #62
> rename #65 CS_P4_J301_locres_flip id #63
> save CS_P4_J301_locres_flip.mrc #63
> show #!46 models
> show #!47 models
> hide #!47 models
> hide #!46 models
> hide #!63 models
> show #!63 models
> volume #63 level 3.952
> hide #!63 models
> volume #62 level 0.0392
> ui tool show "Surface Color"
> color sample #62.1 map #63 palette #13097f:#11b6e1:#99bfe5:#fff6c0:#ffb17f
> outsideColor #808080
Map values for surface "surface": minimum 0, mean 4.383, maximum 43.37
> color sample #62.1 map #63 palette
> 2,#13097f:3,#11b6e1:4,#99bfe5:5,#fff6c0:6,#ffb17f outsideColor #808080
Map values for surface "surface": minimum 0, mean 4.383, maximum 43.37
> show #!63 models
> hide #!63 models
> hide #!62 models
> show #!62 models
> volume #62 level 0.06614
> volume #62 level 0.05745
> save CS_P4_J300_locres_sharp.png supersample 3 transparentBackground true
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow4.cxs"
> open /Users/peiyuyu/Downloads/cryosparc_P7_J110_004_volume_map_sharp.mrc
Opened cryosparc_P7_J110_004_volume_map_sharp.mrc as #64, grid size
160,160,160, pixel 1.66, shown at level 0.28, step 1, values float32
> hide #!62 models
> close #64
> save "/Users/peiyuyu/Documents/Goethe
> University/2026/5_Manuscripts/1_AcrF/Figure/Figure_cryoEM_workflow/SA-
> F_B1/20260507_SA-F_B1_workflow5.cxs"
——— End of log from Thu May 7 21:11:39 2026 ———
> view name session-start
opened ChimeraX session
Failed to send bug report. Bug report server www.rbvi.ucsf.edu is unavailable
[Repeated 1 time(s)]
OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M4 Pro
OpenGL vendor: Apple
Python: 3.11.9
Locale: UTF-8
Qt version: PyQt6 6.9.1, Qt 6.9.0
Qt runtime version: 6.9.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac16,8
Model Number: MX2F3D/A
Chip: Apple M4 Pro
Total Number of Cores: 14 (10 performance and 4 efficiency)
Memory: 24 GB
System Firmware Version: 11881.81.4
OS Loader Version: 11881.81.4
Software:
System Software Overview:
System Version: macOS 15.3.1 (24D70)
Kernel Version: Darwin 24.3.0
Time since boot: 29天16小時42分鐘
Graphics/Displays:
Apple M4 Pro:
Chipset Model: Apple M4 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 20
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
LEN T22i-10:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
aiohappyeyeballs: 2.6.1
aiohttp: 3.13.1
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.12.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.1
attrs: 25.4.0
babel: 2.17.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 3.12.2
build: 1.3.0
certifi: 2025.7.14
cftime: 1.6.5
charset-normalizer: 3.4.4
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.8
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.1.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.61.4
ChimeraX-AtomicLibrary: 14.2.1
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.0
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.11
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.4
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.7.3
ChimeraX-Label: 1.2
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.2
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.2.2
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.1.0
ChimeraX-MDcrds: 2.17.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.3.2
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.22
ChimeraX-ModelPanel: 1.6
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0.1
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.15.2
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.11
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.4.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.5
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.10
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.3
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.49.1
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.5.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.3.1
colorama: 0.4.6
comm: 0.2.3
contourpy: 1.3.3
coverage: 7.13.0
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.1.4
debugpy: 1.8.19
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.1
filelock: 3.19.1
fonttools: 4.61.1
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.0
grako: 3.16.5
h11: 0.16.0
h5py: 3.15.1
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
idna: 3.11
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.3.0
ipykernel: 6.30.1
ipython: 9.5.0
ipython_pygments_lexers: 1.1.1
ipywidgets: 8.1.8
jedi: 0.19.2
Jinja2: 3.1.6
jsonschema: 4.25.1
jsonschema-specifications: 2025.9.1
jupyter_client: 8.6.3
jupyter_core: 5.9.1
jupyterlab_widgets: 3.0.16
kiwisolver: 1.4.9
line_profiler: 5.0.0
lxml: 6.0.2
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.1
mcp: 1.18.0
msgpack: 1.1.1
multidict: 6.7.0
narwhals: 2.17.0
ndindex: 1.10.1
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.14.1
numpy: 2.4.2
numpy: 1.26.4
OpenMM: 8.2.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.5
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.5.1
plotly: 6.5.2
pluggy: 1.6.0
prompt_toolkit: 3.0.52
propcache: 0.4.1
psutil: 7.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydantic: 2.12.5
pydantic-settings: 2.12.0
pydantic_core: 2.41.5
pydicom: 2.4.4
Pygments: 2.18.0
pyKVFinder: 0.9.0
pynmrstar: 3.3.6
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.2.5
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.9.1
PyQt6-Qt6: 6.9.2
PyQt6-WebEngine-commercial: 6.9.0
PyQt6-WebEngine-Qt6: 6.9.2
PyQt6_sip: 13.10.2
pytest: 9.0.2
pytest-cov: 7.0.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.1
python-multipart: 0.0.21
pytz: 2025.2
pyzmq: 27.1.0
qtconsole: 5.7.0
QtPy: 2.4.3
qtshim: 1.2
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.32.5
roman-numerals: 4.0.0
roman-numerals-py: 4.0.0
rpds-py: 0.30.0
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
six: 1.17.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.8
Sphinx: 8.2.3
sphinx-autodoc-typehints: 3.2.0
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
sse-starlette: 3.0.4
stack-data: 0.6.3
starlette: 0.50.0
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tomlkit: 0.14.0
tornado: 6.5.4
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
tzdata: 2025.3
urllib3: 2.6.2
uvicorn: 0.38.0
wcwidth: 0.2.14
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.15
yarl: 1.22.0
Change History (2)
comment:1 by , 4 days ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Description: | modified (diff) |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash moving tool window, Mac multiple displays |
comment:2 by , 4 days ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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This ChimeraX crash was in the Qt window toolkit moving a ChimeraX tool panel. It is a bug in Qt. We have seen many reports of this crash, but have seen none in Qt 6.10 which is used in the current ChimeraX 1.12 release candidate and daily builds. You may want to try one of those versions.