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Opened 4 hours ago
Last modified 99 minutes ago
#20180 assigned defect
Crash in swap_buffers exposing status line during Mac wakeup
| 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
The following bug report has been submitted:
Platform: macOS-26.3.1-arm64-arm-64bit
ChimeraX Version: 1.11.1 (2026-01-23 05:51:34 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Bus error
Current thread 0x0000000207ab7100 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 248 in swap_buffers
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 561 in swap_buffers
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 166 in status
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 98 in _expose_event
File "/Applications/ChimeraX-1.11.1.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-1.11.1.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-1.11.1.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.map._map, psutil._psutil_osx, psutil._psutil_posix, chimerax.pdb_lib._load_libs, chimerax.surface._surface, PIL._imaging, 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, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio, PIL._imagingmath, chimerax.mlp._mlp, chimerax.atom_search.ast, chimerax.chem_group._chem_group, chimerax.coulombic._esp (total: 52)
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{
"uptime" : 280000,
"procRole" : "Foreground",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac16,8",
"coalitionID" : 4902,
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"build" : "25D2128",
"releaseType" : "User"
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"captureTime" : "2026-04-16 11:44:07.1088 -0400",
"codeSigningMonitor" : 2,
"incident" : "029FBBBD-7E89-4313-B05D-CAAE07609FC0",
"pid" : 52002,
"translated" : false,
"cpuType" : "ARM-64",
"procLaunch" : "2026-04-14 14:58:40.6567 -0400",
"procStartAbsTime" : 6257221911233,
"procExitAbsTime" : 6867390977849,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.11.1.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.11.1","CFBundleVersion":"1.11.1.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
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"parentProc" : "launchd",
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"crashReporterKey" : "D2BA99FD-E730-336D-E992-2297E34EE757",
"appleIntelligenceStatus" : {"reasons":["notOptedIn","assetIsNotReady"],"state":"unavailable"},
"developerMode" : 1,
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"codeSigningAuxiliaryInfo" : 0,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRFOD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkQng\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"bootSessionUUID" : "96F06510-75EB-4DD7-A32B-8D42B46C104E",
"wakeTime" : 2713,
"sleepWakeUUID" : "BC66EEFC-92A8-43BD-B173-16AF145886A2",
"sip" : "enabled",
"vmRegionInfo" : "0x800001080 is in 0x5e8000000-0x8e4000000; bytes after start: 8992592000 bytes before end: 3825201023
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
MALLOC_LARGE 5b0c00000-5b2ba4000 [ 31.6M] rw-\/rwx SM=PRV
GAP OF 0x3545c000 BYTES
---> commpage (reserved) 5e8000000-8e4000000 [ 11.9G] ---\/--- SM=NUL reserved VM address space (unallocated)
MALLOC_SMALL 8e4000000-8e4400000 [ 4096K] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000002, 0x0000000800001080","rawCodes":[2,34359742592],"type":"EXC_BAD_ACCESS","signal":"SIGBUS","subtype":"KERN_PROTECTION_FAILURE at 0x0000000800001080"},
"termination" : {"flags":0,"code":10,"namespace":"SIGNAL","indicator":"Bus error: 10","byProc":"ChimeraX","byPid":52002},
"vmregioninfo" : "0x800001080 is in 0x5e8000000-0x8e4000000; bytes after start: 8992592000 bytes before end: 3825201023
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
MALLOC_LARGE 5b0c00000-5b2ba4000 [ 31.6M] rw-\/rwx SM=PRV
GAP OF 0x3545c000 BYTES
---> commpage (reserved) 5e8000000-8e4000000 [ 11.9G] ---\/--- SM=NUL reserved VM address space (unallocated)
MALLOC_SMALL 8e4000000-8e4400000 [ 4096K] rw-\/rwx SM=PRV ",
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===== Log before crash start =====
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> /Applications/ChimeraX.app/Contents/MacOS/ChimeraX
Unknown command: /Applications/ChimeraX.app/Contents/MacOS/ChimeraX
> open
> /Users/lucychappell/Downloads/fold_citrus_clementina_acd15/fold_citrus_clementina_acd15_model_0.cif
> format mmcif
Chain information for fold_citrus_clementina_acd15_model_0.cif #1
---
Chain | Description
A | .
Computing secondary structure
> open
> /Users/lucychappell/Downloads/fold_citrus_clementina_acd21/fold_citrus_clementina_acd21_model_0.cif
> format mmcif
Chain information for fold_citrus_clementina_acd21_model_0.cif #2
---
Chain | Description
A | .
Computing secondary structure
> open
> /Users/lucychappell/Downloads/fold_citrus_clementina_mbd6/fold_citrus_clementina_mbd6_model_1.cif
Chain information for fold_citrus_clementina_mbd6_model_1.cif #3
---
Chain | Description
A | .
Computing secondary structure
> select add #1
1089 atoms, 1112 bonds, 141 residues, 1 model selected
> select add #2
4470 atoms, 4492 bonds, 756 residues, 2 models selected
> select add #3
6384 atoms, 6450 bonds, 1004 residues, 3 models selected
> sequence chain #1/A
Alignment identifier is 1/A
> sequence chain #2/A
Alignment identifier is 2/A
> sequence chain #3/A
Alignment identifier is 3/A
> select subtract #3
4470 atoms, 4492 bonds, 756 residues, 2 models selected
> select subtract #2
1089 atoms, 1112 bonds, 141 residues, 1 model selected
> select subtract #1
Nothing selected
> mlp
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> hide surfaces
> show surfaces
> undo
> select #2/A:61
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #2/A:61-265
1150 atoms, 1149 bonds, 205 residues, 1 model selected
> select #2/A:265-266
11 atoms, 10 bonds, 2 residues, 1 model selected
> select #2/A:228-265
216 atoms, 215 bonds, 38 residues, 1 model selected
> select #1/A:120
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #1/A:80-120
325 atoms, 336 bonds, 41 residues, 1 model selected
> select add #1
1089 atoms, 1112 bonds, 141 residues, 2 models selected
> coulombic sel
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
To also show corresponding color key, enter the above coulombic command and
add key true
> select add #2
4470 atoms, 4492 bonds, 756 residues, 3 models selected
> select subtract #1
3381 atoms, 3380 bonds, 615 residues, 3 models selected
> coulombic sel
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for fold_citrus_clementina_acd21_model_0.cif_A SES surface
#2.1: minimum, -23.77, mean -0.84, maximum 8.58
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd21_model_0.cif_A SES surface
#2.1: minimum, -23.77, mean -0.84, maximum 8.58
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> select subtract #2
1 model selected
> select add #3
1914 atoms, 1958 bonds, 248 residues, 1 model selected
> coulombic sel
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
To also show corresponding color key, enter the above mlp command and add key
true
> select add #1
3003 atoms, 3070 bonds, 389 residues, 3 models selected
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
Desktop color scheme is dark
Desktop color scheme is light
Desktop color scheme is dark
Desktop color scheme is light
> select subtract #3
1089 atoms, 1112 bonds, 141 residues, 3 models selected
> select subtract #1
1 model selected
> select add #2
3381 atoms, 3380 bonds, 615 residues, 1 model selected
> coulombic sel
Coulombic values for fold_citrus_clementina_acd21_model_0.cif_A SES surface
#2.1: minimum, -23.77, mean -0.84, maximum 8.58
To also show corresponding color key, enter the above coulombic command and
add key true
> select subtract #2
1 model selected
> select add #2
3381 atoms, 3380 bonds, 615 residues, 1 model selected
> select subtract #2
1 model selected
> hide #!3 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!1 surfaces
> show #!1 surfaces
> hide #!1 surfaces
> show #!1 surfaces
> hide #!1 surfaces
> show #!1 surfaces
> hide #!1 surfaces
> show #!1 surfaces
> show #!3 models
> mlp #!1,3
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic #!1,3
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp #!1,3
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic #!1,3
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp #!1,3
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic #!1,3
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp #!1,3
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic #!1,3
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> hide #!1,3 surfaces
> show #!1,3 surfaces
> hide #!1,3 surfaces
> show #!1,3 surfaces
> hide #!1,3 surfaces
> show #!2 models
> hide surfaces
> select #1/A:17-20,34-38,42-48,60-63,68-75,99-106,116-120,125-131
377 atoms, 378 bonds, 48 residues, 1 model selected
> select #3/A:121-160
333 atoms, 339 bonds, 40 residues, 1 model selected
> select #1/A:18
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:18-19
16 atoms, 15 bonds, 2 residues, 1 model selected
> select #1/A:17
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:17
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:17
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:17-20,34-38,42-48,60-63,68-75,99-106,116-120,125-131
377 atoms, 378 bonds, 48 residues, 1 model selected
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> select #2/A:169
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #2/A:169
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #2/A:170
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #2/A:170
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #2/A:170
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #2/A:169-170
12 atoms, 11 bonds, 2 residues, 1 model selected
> select #2/A:169
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #2/A:168-169
12 atoms, 11 bonds, 2 residues, 1 model selected
> select #2/A:168-169
12 atoms, 11 bonds, 2 residues, 1 model selected
> select #2/A:168-170
19 atoms, 18 bonds, 3 residues, 1 model selected
> select #2/A:168-170,189-191,353-355,376-378,480-482,498-502,518-521
148 atoms, 141 bonds, 24 residues, 1 model selected
> mlp sel
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> select #3/A:97-101,111-117,127-133,138-140,203-208,213-217
310 atoms, 317 bonds, 33 residues, 1 model selected
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
To also show corresponding color key, enter the above mlp command and add key
true
> select add #3
1914 atoms, 1958 bonds, 248 residues, 2 models selected
> select subtract #3
1 model selected
> select add #3
1914 atoms, 1958 bonds, 248 residues, 1 model selected
> select add #2
5295 atoms, 5338 bonds, 863 residues, 3 models selected
> select add #1
6384 atoms, 6450 bonds, 1004 residues, 5 models selected
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> hide sel surfaces
> show sel surfaces
> hide sel surfaces
> show sel surfaces
> view orient
> hide #!3 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> select subtract #2
3003 atoms, 3070 bonds, 389 residues, 5 models selected
> select subtract #3
1089 atoms, 1112 bonds, 141 residues, 3 models selected
> select subtract #1
1 model selected
> select #1/A:17
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #1
1089 atoms, 1112 bonds, 141 residues, 2 models selected
> hide sel surfaces
> select subtract #1
1 model selected
> select #1/A:17
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel surfaces
> hide sel surfaces
> show sel surfaces
> hide sel surfaces
> mlp sel
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> select #1/A:21-23,113-115
46 atoms, 45 bonds, 6 residues, 1 model selected
> mlp sel
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
To also show corresponding color key, enter the above mlp command and add key
true
> select #1/A:114
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #1/A:114-115
19 atoms, 18 bonds, 2 residues, 1 model selected
> select #1/A:112
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #1/A:112-113
15 atoms, 15 bonds, 2 residues, 1 model selected
> hide sel surfaces
> select #1/A:21-23,113-115
46 atoms, 45 bonds, 6 residues, 1 model selected
> select #1/A:21
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #1/A:21-23
20 atoms, 19 bonds, 3 residues, 1 model selected
> hide sel surfaces
> select #1/A:113
7 atoms, 7 bonds, 1 residue, 1 model selected
> select #1/A:113-115
26 atoms, 26 bonds, 3 residues, 1 model selected
> select #1/A:113-114
18 atoms, 18 bonds, 2 residues, 1 model selected
> select #1/A:113-114
18 atoms, 18 bonds, 2 residues, 1 model selected
> hide sel surfaces
> select #1/A:21-23,113-115
46 atoms, 45 bonds, 6 residues, 1 model selected
> select #1/A:21
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #1/A:21-23
20 atoms, 19 bonds, 3 residues, 1 model selected
> show sel surfaces
> hide sel surfaces
> select #1/A:16-17
14 atoms, 13 bonds, 2 residues, 1 model selected
> select #1/A:16-20
34 atoms, 33 bonds, 5 residues, 1 model selected
> show sel surfaces
> select #1/A:18
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:18-19
16 atoms, 15 bonds, 2 residues, 1 model selected
> select #1/A:17
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:18
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/A:18-20
20 atoms, 19 bonds, 3 residues, 1 model selected
> hide sel surfaces
> select #1/A:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #1/A:1-14
117 atoms, 120 bonds, 14 residues, 1 model selected
> show sel surfaces
> select add #1
1089 atoms, 1112 bonds, 141 residues, 2 models selected
> select subtract #1
1 model selected
> select add #2
3381 atoms, 3380 bonds, 615 residues, 1 model selected
> select subtract #2
1 model selected
> select add #1
1089 atoms, 1112 bonds, 141 residues, 1 model selected
> show sel surfaces
> select add #3
3003 atoms, 3070 bonds, 389 residues, 3 models selected
> show sel & #!1 surfaces
> show #!3 models
> show #!2 models
> select add #2
6384 atoms, 6450 bonds, 1004 residues, 5 models selected
> coulombic sel
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_acd21_model_0.cif_A SES surface
#2.1: minimum, -23.77, mean -0.84, maximum 8.58
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> mlp sel
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> hide #!2 models
> hide #!3 models
> select subtract #1
5295 atoms, 5338 bonds, 863 residues, 5 models selected
> show #!2 models
> show #!3 models
> select subtract #2
1914 atoms, 1958 bonds, 248 residues, 3 models selected
> select subtract #3
1 model selected
> view orient
> hide #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!3 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!3 models
> coulombic #!1,3
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> show #!2 models
> coulombic
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_acd21_model_0.cif_A SES surface
#2.1: minimum, -23.77, mean -0.84, maximum 8.58
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> coulombic
Coulombic values for fold_citrus_clementina_acd15_model_0.cif_A SES surface
#1.1: minimum, -10.59, mean 0.88, maximum 12.96
Coulombic values for fold_citrus_clementina_acd21_model_0.cif_A SES surface
#2.1: minimum, -23.77, mean -0.84, maximum 8.58
Coulombic values for fold_citrus_clementina_mbd6_model_1.cif_A SES surface
#3.1: minimum, -13.95, mean -0.41, maximum 12.24
To also show corresponding color key, enter the above coulombic command and
add key true
> hide #!2 models
> hide #!1 models
> show #!2 models
> hide #!3 models
> show #!1 models
> show #!3 models
> mlp
Map values for surface "fold_citrus_clementina_mbd6_model_1.cif_A SES
surface": minimum -26.98, mean -6.08, maximum 23.48
Map values for surface "fold_citrus_clementina_acd15_model_0.cif_A SES
surface": minimum -26.59, mean -4.581, maximum 20.17
Map values for surface "fold_citrus_clementina_acd21_model_0.cif_A SES
surface": minimum -28.52, mean -8.641, maximum 13.57
To also show corresponding color key, enter the above mlp command and add key
true
> hide #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!3 models
> show #!3 models
> hide #!1,3 surfaces
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M4 Pro
OpenGL vendor: Apple
Python: 3.11.9
Locale: en_US.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: MX2H3LL/A
Chip: Apple M4 Pro
Total Number of Cores: 12 (8 Performance and 4 Efficiency)
Memory: 24 GB
System Firmware Version: 13822.81.10
OS Loader Version: 13822.81.10
Software:
System Software Overview:
System Version: macOS 26.3.1 (25D2128)
Kernel Version: Darwin 25.3.0
Time since boot: 28 days, 12 hours, 24 minutes
Graphics/Displays:
Apple M4 Pro:
Chipset Model: Apple M4 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 16
Vendor: Apple (0x106b)
Metal Support: Metal 4
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: No
Connection Type: Internal
Installed Packages:
aiohappyeyeballs: 2.6.1
aiohttp: 3.13.1
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.12.1
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: 1.11.1
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: 2.7.12
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: 7.13.1
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: 4.26.0
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
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: 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
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
pynmrstar: 3.3.6
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
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
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: 4.1.0
roman-numerals-py: 4.1.0
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: 2.8.3
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: 3.2.0
stack-data: 0.6.3
starlette: 0.52.1
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.4
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
urllib3: 2.6.3
uvicorn: 0.40.0
wcwidth: 0.3.2
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.15
yarl: 1.22.0
Change History (1)
comment:1 by , 99 minutes ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash in swap_buffers exposing status line during Mac wakeup |
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