![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 5 months ago
Closed 5 months ago
#17858 closed defect (duplicate)
Graphics hardware encountered an error and was reset
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Graphics | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-13.7.4-x86_64-i386-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. This is an Apple Intel or AMD graphics driver crash that may be related to showing a scene that is complex and uses too much graphics memory. Apple is unlikely to ever fix this since they no longer make computers with Intel or AMD graphics. The crash does not happen with Apple M1,M2,M3... graphics.
Fatal Python error: Aborted
Current thread 0x00007ff85f8259c0 (most recent call first):
File "/Applications/ChimeraX-1.9.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-1.9.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-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/view.py", line 202 in draw
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 84 in draw_new_frame
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 150 in _redraw_timer_callback
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 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, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, chimerax.pdb_lib._load_libs, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, 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, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, lxml._elementpath, lxml.etree (total: 57)
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"procRole" : "Foreground",
"version" : 2,
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"incident" : "EA63440E-7F88-4A00-B90D-BA568D03A3B8",
"pid" : 86843,
"cpuType" : "X86-64",
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"bug_type" : "309",
"procLaunch" : "2025-05-30 17:33:24.2487 +0100",
"procStartAbsTime" : 378031053190154,
"procExitAbsTime" : 378453738842631,
"procName" : "ChimeraX",
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"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "C0DF0645-E4B1-59D5-7ABA-A599E732AEE1",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
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"wakeTime" : 13725,
"sleepWakeUUID" : "A43BB93D-B7E6-4E93-8A9A-AF24C88C2665",
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"base" : 5398835200,
"size" : 180224,
"uuid" : "af5af6cd-8200-3b53-b58e-822a20f01893",
"path" : "\/Applications\/ChimeraX-1.9.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/chimerax\/pdb\/_pdbio.cpython-311-darwin.so",
"name" : "_pdbio.cpython-311-darwin.so"
},
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"base" : 5408550912,
"size" : 3915776,
"uuid" : "bfecdf7d-82ca-36af-86fb-90f272cdc263",
"path" : "\/Applications\/ChimeraX-1.9.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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"source" : "P",
"arch" : "x86_64",
"base" : 5399179264,
"size" : 131072,
"uuid" : "21fc90fd-fbf7-3c7d-8a75-746218b81cb2",
"path" : "\/Applications\/ChimeraX-1.9.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"
},
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"arch" : "x86_64",
"base" : 5474279424,
"CFBundleShortVersionString" : "9.0",
"CFBundleIdentifier" : "com.apple.URLMount.CIFSPlugin",
"size" : 32768,
"uuid" : "d0601946-f4f1-3df5-bca4-e74516ce984b",
"path" : "\/System\/Library\/Filesystems\/NetFSPlugins\/smb.bundle\/Contents\/MacOS\/smb",
"name" : "smb",
"CFBundleVersion" : "9.0"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703599464448,
"size" : 237568,
"uuid" : "91f164d1-a55f-34cf-b2a4-bd515a4994d1",
"path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
"name" : "libsystem_kernel.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703598313472,
"size" : 557048,
"uuid" : "77738df4-82b8-3690-937e-cc1d4981a630",
"path" : "\/usr\/lib\/system\/libsystem_c.dylib",
"name" : "libsystem_c.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703599898624,
"size" : 40944,
"uuid" : "9ae2c3dc-b88b-3c82-a0bd-918275fe7661",
"path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
"name" : "libsystem_platform.dylib"
},
{
"size" : 0,
"source" : "A",
"base" : 0,
"uuid" : "00000000-0000-0000-0000-000000000000"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140708164534272,
"size" : 45048,
"uuid" : "fa200a54-4aea-3c68-8554-153b0eafe00b",
"path" : "\/System\/Library\/PrivateFrameworks\/GPUSupport.framework\/Versions\/A\/Libraries\/libGPUSupportMercury.dylib",
"name" : "libGPUSupportMercury.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140712487149568,
"CFBundleShortVersionString" : "20.7.3",
"CFBundleIdentifier" : "com.apple.driver.AppleIntelKBLGraphicsGLDriver",
"size" : 15810552,
"uuid" : "5f7ffdcb-cb05-341b-958f-031a66798a41",
"path" : "\/System\/Library\/Extensions\/AppleIntelKBLGraphicsGLDriver.bundle\/Contents\/MacOS\/AppleIntelKBLGraphicsGLDriver",
"name" : "AppleIntelKBLGraphicsGLDriver",
"CFBundleVersion" : "20.0.7"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140712635379712,
"size" : 1581056,
"uuid" : "3bb05a2b-9d37-33f6-a688-738dbeb615ec",
"path" : "\/System\/Library\/Frameworks\/OpenGL.framework\/Versions\/A\/Resources\/GLEngine.bundle\/GLEngine",
"name" : "GLEngine"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140712633163776,
"CFBundleShortVersionString" : "20.5.2",
"CFBundleIdentifier" : "com.apple.opengl",
"size" : 65536,
"uuid" : "445a1b01-10ab-3e0d-973b-a566330a1b35",
"path" : "\/System\/Library\/Frameworks\/OpenGL.framework\/Versions\/A\/OpenGL",
"name" : "OpenGL",
"CFBundleVersion" : "20.5.2"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703651348480,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.AppKit",
"size" : 16814080,
"uuid" : "ffbe13d4-671e-3e83-929e-199c5279e37d",
"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
"CFBundleVersion" : "2299.77.138"
},
{
"source" : "P",
"arch" : "x86_64h",
"base" : 140703600115712,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.CoreFoundation",
"size" : 4837360,
"uuid" : "7b6e03ad-3416-38a7-838c-36f8bfdc347d",
"path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
"name" : "CoreFoundation",
"CFBundleVersion" : "1979.104.901"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703762485248,
"CFBundleShortVersionString" : "2.1.1",
"CFBundleIdentifier" : "com.apple.HIToolbox",
"size" : 3112954,
"uuid" : "a798e4be-2bf2-35dc-9d38-1d4521cf926e",
"path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
"name" : "HIToolbox"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703596183552,
"size" : 623536,
"uuid" : "35147f34-023b-37a6-80df-5753d952a289",
"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703599702016,
"size" : 49152,
"uuid" : "51a43b06-feb4-3836-9e4f-21b69bb13726",
"path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
"name" : "libsystem_pthread.dylib"
},
{
"source" : "P",
"arch" : "x86_64",
"base" : 140703615492096,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.Foundation",
"size" : 9998322,
"uuid" : "40db35a2-4d78-3229-bcdf-76740df66844",
"path" : "\/System\/Library\/Frameworks\/Foundation.framework\/Versions\/C\/Foundation",
"name" : "Foundation",
"CFBundleVersion" : "1979.104.901"
}
],
"sharedCache" : {
"base" : 140703595560960,
"size" : 21474836480,
"uuid" : "d23d12c3-82ca-30a7-9d43-7c7c0380823f"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=1.2G resident=0K(0%) swapped_out_or_unallocated=1.2G(100%)\nWritable regions: Total=1.0G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.0G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 256K 2 \nActivity Tracing 256K 1 \nCG backing stores 2880K 8 \nCG image 364K 33 \nColorSync 264K 30 \nCoreAnimation 140K 20 \nCoreGraphics 16K 3 \nCoreGraphics (reserved) 8K 1 reserved VM address space (unallocated)\nCoreUI image data 4964K 46 \nFoundation 32K 2 \nIOKit 15.5M 2 \nKernel Alloc Once 8K 1 \nMALLOC 345.2M 355 \nMALLOC guard page 32K 7 \nMALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated)\nMach message 16K 3 \nOpenGL GLSL 384K 4 \nSTACK GUARD 108K 27 \nStack 186.7M 28 \nStack Guard 56.0M 1 \nVM_ALLOCATE 138.2M 174 \n__CTF 824 1 \n__DATA 42.1M 808 \n__DATA_CONST 50.9M 487 \n__DATA_DIRTY 1868K 243 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__INFO_FILTER 8 1 \n__LINKEDIT 203.1M 155 \n__OBJC_RO 66.3M 1 \n__OBJC_RW 2013K 2 \n__TEXT 993.0M 816 \ndyld private memory 292K 4 \nmapped file 219.9M 54 \nshared memory 3592K 41 \n=========== ======= ======= \nTOTAL 2.7G 3365 \nTOTAL, minus reserved VM space 2.3G 3365 \n",
"legacyInfo" : {
"threadTriggered" : {
"name" : "CrBrowserMain"
}
},
"logWritingSignature" : "d4f07f1db4b40a0ee2a3254cfab6afcd364e4dbf",
"trialInfo" : {
"rollouts" : [
{
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"factorPackIds" : {
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},
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{
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"deploymentId" : 240000001
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],
"experiments" : [
{
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"experimentId" : "6685b283afc7c17197d69eec",
"deploymentId" : 400000012
}
]
}
}
===== Log before crash start =====
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/anika/Desktop/RH5 (4WAT) + haplotype mutations.cxs"
Log from Thu May 29 12:16:43 2025UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/RH5 (4WAT) + 97.cxs"
Log from Mon May 12 00:38:48 2025UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/RH5 (4WAT) + 97.cxs"
Log from Sun May 11 18:05:45 2025UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/RH5-dNLC 3D7 + 97 AF3.cxs"
Log from Sat May 10 14:58:11 2025UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/RH5-dNLC 3D7 AF3.cxs"
Log from Sat May 10 14:53:36 2025 Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/AF3 prediction
> files/2025_05_10_rh5_dnlc_3d7/fold_2025_05_10_rh5_dnlc_3d7_model_0.cif"
Chain information for fold_2025_05_10_rh5_dnlc_3d7_model_0.cif #1
---
Chain | Description
A | .
Computing secondary structure
> view
[Repeated 1 time(s)]
> save "/Users/anika/Desktop/RH5-dNLC 3D7.cxs"
——— End of log from Sat May 10 14:53:36 2025 ———
opened ChimeraX session
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/AF3 prediction
> files/2025_05_10_97_rh5_4_dntct_rev5/fold_2025_05_10_97_rh5_4_dntct_rev5_model_0.cif"
Chain information for fold_2025_05_10_97_rh5_4_dntct_rev5_model_0.cif #2
---
Chain | Description
A | .
Computing secondary structure
> align #2 toAtoms #1
Unequal number of atoms to pair, 2607 and 2711
> matchmaker #2 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker fold_2025_05_10_rh5_dnlc_3d7_model_0.cif, chain A (#1) with
fold_2025_05_10_97_rh5_4_dntct_rev5_model_0.cif, chain A (#2), sequence
alignment score = 1401.5
RMSD between 293 pruned atom pairs is 0.505 angstroms; (across all 308 pairs:
0.896)
> color #1 light blue
> color #2 light green
> save "/Users/anika/Desktop/RH5-dNLC 3D7 + 97 AF3.cxs"
——— End of log from Sat May 10 14:58:11 2025 ———
opened ChimeraX session
> 4wat
Unknown command: 4wat
> open 4wat
4wat title:
Crystal structure of PfRh5, an essential P. falciparum ligand for invasion of
human erythrocytes [more info...]
Chain information for 4wat #3
---
Chain | Description
A | PfRh5
Non-standard residues in 4wat #3
---
IMD — imidazole
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine;
2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE)
> matchmaker #3 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker fold_2025_05_10_rh5_dnlc_3d7_model_0.cif, chain A (#1) with 4wat,
chain A (#3), sequence alignment score = 1625.6
RMSD between 299 pruned atom pairs is 0.515 angstroms; (across all 313 pairs:
2.539)
> hide atoms
> delete #1
> hide label
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> hide labels
Expected a collection of one of 'atoms', 'bonds', 'cartoons', 'models',
'pbonds', 'pseudobonds', 'ribbons', or 'surfaces' or a keyword
> delete label
Missing or invalid "atoms" argument: invalid atoms specifier
> delete labels
Missing or invalid "atoms" argument: invalid atoms specifier
> label delete
> color #3 light blue
> select #3:378 #3:382 #3:385 #3:386 #3:389 #3:392 #3:393 #3:396 #3:400 #3:491
> #3:494 #3:495 #3:498 #3:501 #3:502 #3:503 #3:506
145 atoms, 135 bonds, 17 residues, 1 model selected
> color sel dark orange
> select #3:193 #3:202 #3:204 #3:205 #3:207 #3:208 #3:209 #3:211 #3:212 #3:213
> #3:215 #3:216 #3:335 #3:339 #3:327 #3:328 #3:330 #3:331 #3:334 #3:338 #3:341
> #3:342 #3:344
189 atoms, 179 bonds, 23 residues, 1 model selected
> color sel red
> select #3:197 #3:346 #3:352 #3:357 #3:358 #3:360 #3:361 #3:362 #3:365 #3:366
> #3:442 #3:447 #3:448 #3:196 #3:198 #3:344 #3:345 #3:348 #3:349 #3:350 #3:354
> #3:451 #3:452
210 atoms, 206 bonds, 23 residues, 1 model selected
> color sel navy
> select #3:350 #3:437 #3:440 #3:441 #3:444 #3:445 #3:448 #3:451 #3:453 #3:454
> #3:457 #3:458 #3:461
117 atoms, 109 bonds, 13 residues, 1 model selected
> select #3:350 #3:437 #3:440 #3:441 #3:444 #3:445 #3:448 #3:451 #3:453 #3:454
> #3:457 #3:458 #3:461
117 atoms, 109 bonds, 13 residues, 1 model selected
> color sel purple
> select #3:154 #3:155 #3:156 #3:157 #3:158 #3:159 #3:160 #3:161 #3:162 #3:163
> #3:305 #3:307 #3:308 #3:311 #3:312 #3:315 #3:316 #3:319 #3:322 #3:419 #3:423
181 atoms, 175 bonds, 21 residues, 1 model selected
> color sel green
> select clear
> select #2/A:43
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:52
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:54
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:55
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #2/A:54
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:55
5 atoms, 4 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:57
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:58
5 atoms, 4 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:59
11 atoms, 11 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:61
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:62
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:63
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:65
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:66
5 atoms, 4 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:143
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:142
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:140
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:139
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:136
12 atoms, 12 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:135
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:132
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #3/A:330
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:131
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:128
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/A:129
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel tomato
> select #2/A:128
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel tomato
> select #3:344
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #2/A:145
6 atoms, 5 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:146
6 atoms, 5 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:147
12 atoms, 12 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:149
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:150
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:153
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:155
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:158
11 atoms, 10 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:159
12 atoms, 12 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:161
12 atoms, 12 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:162
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:163
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel cornflower blue
Drag select of 16 residues
> select clear
> select #2/A:166
10 atoms, 10 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:167
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel cornflower blue
Drag select of 22 residues
> select #2/A:47
6 atoms, 5 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:46
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:48
6 atoms, 5 bonds, 1 residue, 1 model selected
> color sel cornflower blue
Drag select of 2 residues
> select 3:442
Expected an objects specifier or a keyword
> select #3:442
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:253
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #3:442
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:253
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #3:442
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:253
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #3:451
9 atoms, 8 bonds, 1 residue, 1 model selected
> select ~sel & ##selected
2914 atoms, 2895 bonds, 1 pseudobond, 415 residues, 2 models selected
> select #3:448
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:248
14 atoms, 15 bonds, 1 residue, 1 model selected
> select #3:448
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:248
14 atoms, 15 bonds, 1 residue, 1 model selected
> select up
68 atoms, 70 bonds, 7 residues, 1 model selected
> select up
2607 atoms, 2655 bonds, 308 residues, 1 model selected
> select up
5530 atoms, 5558 bonds, 724 residues, 2 models selected
> select up
5530 atoms, 5558 bonds, 724 residues, 2 models selected
> select down
2607 atoms, 2655 bonds, 308 residues, 1 model selected
> select down
68 atoms, 70 bonds, 7 residues, 1 model selected
> select down
14 atoms, 15 bonds, 1 residue, 1 model selected
> select down
14 atoms, 15 bonds, 1 residue, 1 model selected
> select #3:448
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:248
14 atoms, 15 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:151
11 atoms, 11 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> color sel medium purple
> select #2/A:252
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:254
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:255
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:258
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:259
11 atoms, 10 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:262
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:249
11 atoms, 10 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:246
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:245
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:243
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel cornflower blue
> select #2/A:242
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:241
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:238
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel medium purple
> select #2/A:179
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:183
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:186
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel GOLD
Expected a color or one of 'byatom', 'bychain', 'byelement', 'byhetero',
'byidentity', 'bymodel', 'bynucleotide', 'bypolymer', 'fromatoms',
'fromcartoons', 'fromribbons', or 'random' or a keyword
> color sel gold
> color sel khaki
> select #2/A:187
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel khaki
> select #2/A:190
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel gold
> select up
224 atoms, 224 bonds, 26 residues, 1 model selected
> select down
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:193
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:194
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:197
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:201
9 atoms, 8 bonds, 1 residue, 1 model selected
> select up
224 atoms, 224 bonds, 26 residues, 1 model selected
> select down
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel khaki
> select #2/A:292
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel khaki
> select #2/A:295
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
460 atoms, 465 bonds, 55 residues, 1 model selected
> select down
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel yellow
> select #2/A:296
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel yellow
> VIEW
Unknown command: VIEW
> view
[Repeated 1 time(s)]
> save "/Users/anika/Desktop/RH5 (4WAT) + 97.cxs"
——— End of log from Sun May 11 18:05:45 2025 ———
opened ChimeraX session
> color #2 light green
> color #3 light blue
> save "/Users/anika/Desktop/RH5 (4WAT) + 97.cxs"
——— End of log from Mon May 12 00:38:48 2025 ———
opened ChimeraX session
> delete #2
> select :203
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #429
Nothing selected
> select 147
Expected an objects specifier or a keyword
> select :147
12 atoms, 12 bonds, 1 residue, 1 model selected
> select :148
10 atoms, 10 bonds, 1 residue, 1 model selected
> select :197
6 atoms, 5 bonds, 1 residue, 1 model selected
> select :371
7 atoms, 6 bonds, 1 residue, 1 model selected
> select :407
8 atoms, 7 bonds, 1 residue, 1 model selected
> select :410
8 atoms, 7 bonds, 1 residue, 1 model selected
> select :429
9 atoms, 8 bonds, 1 residue, 1 model selected
> select ::147,148,197,203,371,407,410,429
Expected an objects specifier or a keyword
> select :147,148,197,203,371,407,410,429
66 atoms, 61 bonds, 8 residues, 1 model selected
> color sel red
> select clear
> select :371
7 atoms, 6 bonds, 1 residue, 1 model selected
> select :407
8 atoms, 7 bonds, 1 residue, 1 model selected
> select :371
7 atoms, 6 bonds, 1 residue, 1 model selected
> select :407
8 atoms, 7 bonds, 1 residue, 1 model selected
> select :410
8 atoms, 7 bonds, 1 residue, 1 model selected
> select 29
Expected an objects specifier or a keyword
> select :429
9 atoms, 8 bonds, 1 residue, 1 model selected
> select clear
> select :147,148,197,203,371,407,410,429
66 atoms, 61 bonds, 8 residues, 1 model selected
> style sel stick
Changed 66 atom styles
> show atoms
> hide atoms
> style sel stick
Changed 66 atom styles
> style sel stick
Changed 66 atom styles
> style sel stick
Changed 66 atom styles
> nucleotides sel atoms
> style nucleic & sel stick
Changed 0 atom styles
> nucleotides sel atoms
> style nucleic & sel stick
Changed 0 atom styles
> show sel atoms
> style sel stick
Changed 66 atom styles
> color sel bynucleotide
> color sel byhetero
> select clear
> select :147,148,197,203,371,407,410,429
66 atoms, 61 bonds, 8 residues, 1 model selected
> select label name
Expected an objects specifier or a keyword
> select labelopt name
Expected an objects specifier or a keyword
> label sel text "{0.label_one_letter_code} {0.number}{0.insertion_code}"
> label height 10
> label height 5
> label height 3
> select clear
> view
> save "/Users/anika/Desktop/RH5 (4WAT) + haplotype mutations.cxs"
——— End of log from Thu May 29 12:16:43 2025 ———
opened ChimeraX session
> open "/Volumes/PAED_DRAPER/Draper Group Share/PERSONAL
> FOLDERS/Anika/*RHP25/RH5.4/RH5 (4WAT) + 97 + epitopes.cxs"
opened ChimeraX session
> select #1:147,148,197,203,371,407,410,429
Nothing selected
> select #2::147,148,197,203,371,407,410,429
Expected an objects specifier or a keyword
> select #2:147,148,197,203,371,407,410,429
33 atoms, 31 bonds, 4 residues, 1 model selected
> show atoms
> hide atoms
> select show atoms
Expected an objects specifier or a keyword
> show sel atoms
> label sel text "{0.label_one_letter_code} {0.number}{0.insertion_code}"
> label height 3
> select #2/A:7
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel dark turquoise
> undo
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-20.7.3
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 640
OpenGL vendor: Intel Inc.
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro14,1
Processor Name: Dual-Core Intel Core i5
Processor Speed: 2.3 GHz
Number of Processors: 1
Total Number of Cores: 2
L2 Cache (per Core): 256 KB
L3 Cache: 4 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 529.140.2.0.0
OS Loader Version: 577.140.2~30
SMC Version (system): 2.43f11
Software:
System Software Overview:
System Version: macOS 13.7.4 (22H420)
Kernel Version: Darwin 22.6.0
Time since boot: 16 days, 5 hours, 55 minutes
Graphics/Displays:
Intel Iris Plus Graphics 640:
Chipset Model: Intel Iris Plus Graphics 640
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x5926
Revision ID: 0x0006
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 24-Bit Color (ARGB8888)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
DELL P2422HE:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: 7TDHSX3
Mirror: Off
Online: Yes
Rotation: Supported
Connection Type: Thunderbolt/DisplayPort
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
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
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
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: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
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
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: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
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: 1.18.1
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
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: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
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: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
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
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
Change History (2)
comment:1 by , 5 months ago
| Component: | Unassigned → Graphics |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Graphics hardware encountered an error and was reset |
comment:2 by , 5 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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