![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 12 months ago
Closed 11 months ago
#16283 closed defect (duplicate)
Crash on Mac waking from sleep, Qt 6.7
| 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-14.6-arm64-arm-64bit
ChimeraX Version: 1.9rc202411012347 (2024-11-01 23:47:45 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 0x00000001fa6d8f40 (most recent call first):
File "/Applications/ChimeraX-1.9-rc2024.11.01.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-rc2024.11.01.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-rc2024.11.01.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.surface._surface, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw (total: 53)
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{
"uptime" : 150000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac15,12",
"coalitionID" : 4939,
"osVersion" : {
"train" : "macOS 14.6",
"build" : "23G80",
"releaseType" : "User"
},
"captureTime" : "2024-11-10 22:04:40.4379 +0800",
"codeSigningMonitor" : 1,
"incident" : "1C4E59F8-FA68-4D06-B463-E43384CA1E83",
"pid" : 30636,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-11-10 20:04:49.1112 +0800",
"procStartAbsTime" : 3694713712654,
"procExitAbsTime" : 3784794777811,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9-rc2024.11.01.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"1E280D4C-DA71-579A-B683-56713B4898CA","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "0DDD6F1D-F3C6-7CA8-05FE-CAEBFAAE94D6",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRd+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkWzg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"wakeTime" : 1,
"sleepWakeUUID" : "18F37D3B-EE41-4B44-8C7E-05AE2EF837AC",
"sip" : "enabled",
"vmRegionInfo" : "0x57e1fc2137b8 is not in any region. Bytes after previous region: 96147072956345 Bytes before following region: 8925006973000\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000001, 0x000057e1fc2137b8","rawCodes":[1,96628109293496],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x000057e1fc2137b8"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":30636},
"vmregioninfo" : "0x57e1fc2137b8 is not in any region. Bytes after previous region: 96147072956345 Bytes before following region: 8925006973000\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
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"faultingThread" : 0,
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===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9rc202411012347 (2024-11-01)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/jxs/Desktop/ratTAAR9-MPD_Rf025.pdb
Chain information for ratTAAR9-MPD_Rf025.pdb #1
---
Chain | Description
A | No description available
B | No description available
C | No description available
R | No description available
S | No description available
> set bgColor white
> show cartoons
> style sphere
Changed 9033 atom styles
> show cartoons
> hide cartoons
> show cartoons
> hide surfaces
> show cartoons
> nucleotides atoms
> style nucleic stick
Changed 0 atom styles
> nucleotides atoms
> style nucleic stick
Changed 0 atom styles
> volume hide
No volumes specified
> hide cartoons
> select
9033 atoms, 9238 bonds, 1 pseudobond, 1144 residues, 2 models selected
> hide sel atoms
> show sel cartoons
> select clear
> select ::name="LIG"
7 atoms, 7 bonds, 1 residue, 1 model selected
> show sel target ab
> show sel atoms
> style sel ball
Changed 7 atom styles
> select clear
> select /A
1928 atoms, 1964 bonds, 233 residues, 1 model selected
> hide sel cartoons
> select /B
2600 atoms, 2647 bonds, 338 residues, 1 model selected
> hide sel cartoons
> select /C
425 atoms, 431 bonds, 55 residues, 1 model selected
> hide sel cartoons
> select /C
425 atoms, 431 bonds, 55 residues, 1 model selected
> select /S
1754 atoms, 1799 bonds, 228 residues, 1 model selected
> hide sel cartoons
> ui tool show "Side View"
> ui tool show "Show Sequence Viewer"
> sequence chain /R
Alignment identifier is 1/R
> fetch 8w89
Unknown command: fetch 8w89
> open 8w89 fromDatabase pdb format mmcif
Fetching url http://files.rcsb.org/download/8w89.cif failed:
> open 8w89 fromDatabase pdb format mmcif
Summary of feedback from opening 8w89 fetched from pdb
---
notes | Fetching compressed mmCIF 8w89 from http://files.rcsb.org/download/8w89.cif
Fetching CCD PEA from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/A/PEA/PEA.cif
8w89 title:
Cryo-EM structure of the PEA-bound TAAR1-Gs complex [more info...]
Chain information for 8w89 #2
---
Chain | Description | UniProt
A | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short |
B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | GBB1_HUMAN 2-340
G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | GBG2_HUMAN 1-71
N | Nanobody35 |
R | Trace amine-associated receptor 1 | TAAR1_HUMAN 1-339
Non-standard residues in 8w89 #2
---
PEA — 2-phenylethylamine
> hide #!1 models
> show #!1 models
> select add #2
9984 atoms, 10210 bonds, 1 pseudobond, 1273 residues, 3 models selected
> select add #1
17263 atoms, 17649 bonds, 2 pseudobonds, 2189 residues, 4 models selected
> select subtract #1
8230 atoms, 8411 bonds, 1 pseudobond, 1045 residues, 2 models selected
> hide #!1 models
> hide sel atoms
> show sel cartoons
> select #2/G
436 atoms, 442 bonds, 57 residues, 1 model selected
> hide sel cartoons
> select #2/G
436 atoms, 442 bonds, 57 residues, 1 model selected
> hide sel atoms
> select #2/B
2600 atoms, 2647 bonds, 338 residues, 1 model selected
> hide sel cartoons
> select #2/A
1934 atoms, 1973 bonds, 236 residues, 1 model selected
> hide sel cartoons
> select #2/N
967 atoms, 989 bonds, 127 residues, 1 model selected
> hide sel cartoons
> select ::name="PEA"
9 atoms, 9 bonds, 1 residue, 1 model selected
> show sel target ab
> select clear
> show #!1 models
> ui tool show Matchmaker
> 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 ratTAAR9-MPD_Rf025.pdb, chain B (#1) with 8w89, chain B (#2),
sequence alignment score = 1707.1
RMSD between 330 pruned atom pairs is 0.623 angstroms; (across all 338 pairs:
0.756)
> ui tool show Matchmaker
> select #1/A
1928 atoms, 1964 bonds, 233 residues, 1 model selected
> show sel cartoons
> delete atoms sel
> delete bonds sel
> select #1/B
2600 atoms, 2647 bonds, 338 residues, 1 model selected
> show sel cartoons
> delete atoms sel
> delete bonds sel
> select #1/C
425 atoms, 431 bonds, 55 residues, 1 model selected
> show sel cartoons
> delete atoms sel
> delete bonds sel
> select #2/G
436 atoms, 442 bonds, 57 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select #2/B
2600 atoms, 2647 bonds, 338 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select #2/A
1934 atoms, 1973 bonds, 236 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select #2/N
967 atoms, 989 bonds, 127 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select #1/S
1754 atoms, 1799 bonds, 228 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> ui tool show Matchmaker
> 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 ratTAAR9-MPD_Rf025.pdb, chain R (#1) with 8w89, chain R (#2),
sequence alignment score = 861.9
RMSD between 213 pruned atom pairs is 0.913 angstroms; (across all 260 pairs:
1.898)
> select
> #1/R:25-49,56-84,91-125,130-132,136-157,186-222,227-229,235-270,280-301,306-316,319-321
1810 atoms, 1852 bonds, 226 residues, 1 model selected
> select clear
> select
> #1/R:25-49,56-84,91-125,130-132,136-157,186-222,227-229,235-270,280-301,306-316,319-321
1810 atoms, 1852 bonds, 226 residues, 1 model selected
> select #1/R:265
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #1/R:265
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 8 atom styles
> select #1/R:264
12 atoms, 12 bonds, 1 residue, 1 model selected
> select #1/R:264
12 atoms, 12 bonds, 1 residue, 1 model selected
> style sel stick
Changed 12 atom styles
> style sel stick
Changed 12 atom styles
> style sel stick
Changed 12 atom styles
> style sel stick
Changed 12 atom styles
> show sel cartoons
> style sel stick
Changed 12 atom styles
> show sel atoms
> select
> #1/R:25-49,56-84,91-125,130-132,136-157,186-222,227-229,235-270,280-301,306-316,319-321
1810 atoms, 1852 bonds, 226 residues, 1 model selected
> select #1/R:291-292
24 atoms, 25 bonds, 2 residues, 1 model selected
> select #1/R:291-292
24 atoms, 25 bonds, 2 residues, 1 model selected
> select #1/R:291
12 atoms, 12 bonds, 1 residue, 1 model selected
> select #1/R:291
12 atoms, 12 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 12 atom styles
> select #1/R:102
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #1/R:102
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 8 atom styles
> select #1/R:103
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #1/R:103
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 7 atom styles
> select #1/R:107
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #1/R:107
11 atoms, 11 bonds, 1 residue, 1 model selected
> show sel cartoons
> style sel stick
Changed 11 atom styles
> style sel stick
Changed 11 atom styles
> select #1/R:106
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #1/R:106
6 atoms, 5 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 6 atom styles
> select #1/R:192
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #1/R:192
6 atoms, 5 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 6 atom styles
> select #1/R:264
12 atoms, 12 bonds, 1 residue, 1 model selected
> select #1/R:264-265
20 atoms, 20 bonds, 2 residues, 1 model selected
> select #1/R:264
12 atoms, 12 bonds, 1 residue, 1 model selected
> select #1/R:264
12 atoms, 12 bonds, 1 residue, 1 model selected
> select clear
> ui tool show "Side View"
> tranpancy 60 cartoons
Unknown command: tranpancy 60 cartoons
> tranpancy 60 cartoon
Unknown command: tranpancy 60 cartoon
> transpancy 60 cartoon
Unknown command: transpancy 60 cartoon
> transpancy 60 cartoons
Unknown command: transpancy 60 cartoons
> transparency 60 cartoons
> select #2/R:296
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
207 atoms, 216 bonds, 25 residues, 1 model selected
> select up
592 atoms, 616 bonds, 71 residues, 1 model selected
> select up
601 atoms, 624 bonds, 72 residues, 1 model selected
> select up
2283 atoms, 2351 bonds, 285 residues, 1 model selected
> select down
601 atoms, 624 bonds, 72 residues, 1 model selected
> select up
2283 atoms, 2351 bonds, 285 residues, 1 model selected
> select up
2293 atoms, 2360 bonds, 287 residues, 1 model selected
> select up
4619 atoms, 4757 bonds, 577 residues, 2 models selected
> select down
2293 atoms, 2360 bonds, 287 residues, 1 model selected
> select down
2283 atoms, 2351 bonds, 285 residues, 1 model selected
> select down
601 atoms, 624 bonds, 72 residues, 1 model selected
> select up
2283 atoms, 2351 bonds, 285 residues, 1 model selected
> select down
601 atoms, 624 bonds, 72 residues, 1 model selected
> select up
2283 atoms, 2351 bonds, 285 residues, 1 model selected
> select clear
> select #1/R
2326 atoms, 2397 bonds, 1 pseudobond, 290 residues, 2 models selected
> color (#!1 & sel) red
> ui tool show "Color Actions"
> color (#!1 & sel) #66a4bbff
> color (#!1 & sel) #5e86b9ff
> color (#!1 & sel) #08b92cff
> color (#!1 & sel) #8b92c0ff
> color (#!1 & sel) #dfd0e7ff
> color (#!1 & sel) #54beaaff
> color (#!1 & sel) #c3e9dfff
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9rc202411012347 (2024-11-01)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88.1
OpenGL renderer: Apple M3
OpenGL vendor: Apple
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 Air
Model Identifier: Mac15,12
Model Number: MXCR3CH/A
Chip: Apple M3
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 16 GB
System Firmware Version: 10151.140.19
OS Loader Version: 10151.140.19
Software:
System Software Overview:
System Version: macOS 14.6 (23G80)
Kernel Version: Darwin 23.6.0
Time since boot: 10天21小时22分钟
Graphics/Displays:
Apple M3:
Chipset Model: Apple M3
Type: GPU
Bus: Built-In
Total Number of Cores: 10
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina Display
Resolution: 2560 x 1664 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 1.0.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.7.1
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.17
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: 1.58.7
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: 2.4.7
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13
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: 1.9rc202411012347
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: 1.2.5
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
ChimeraX-Label: 1.1.11
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: 2.7.1
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: 1.5.17
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: 1.6.1
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: 3.2.4
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: 1.3.0
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.7
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.54.1
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.12.1
html2text: 2024.2.26
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: 2.10.1
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: 2.4.1
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
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: 6.4.1
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 , 11 months ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash on Mac waking from sleep |
comment:2 by , 11 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
| Summary: | Crash on Mac waking from sleep → Crash on Mac waking from sleep, Qt 6.7 |
Note:
See TracTickets
for help on using tickets.
The usual crash in _NSViewHierarchyDidChangeBackingProperties, in Qt 6.7.
At time of bug report no external display was connected. Crash says
Not clear if a display was disconnected of possibly the Mac woke from sleep with no external display change.