![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 18 months ago
Closed 17 months ago
#15243 closed defect (can't reproduce)
Crash changing Mac display configuration
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | Eric Pettersen | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-14.4.1-arm64-arm-64bit
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
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{
"uptime" : 4100000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookPro18,4",
"coalitionID" : 282921,
"osVersion" : {
"train" : "macOS 14.4.1",
"build" : "23E224",
"releaseType" : "User"
},
"captureTime" : "2024-05-14 22:47:47.9684 +0800",
"codeSigningMonitor" : 1,
"incident" : "D7A3A5FD-5F62-40B2-BFDA-FB1BB49605B0",
"pid" : 58641,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-05-09 14:45:10.0108 +0800",
"procStartAbsTime" : 87982462953496,
"procExitAbsTime" : 99001264436381,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
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"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "D8358872-4DB6-5478-F8C7-3E5FBBF552EB",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"IAAg1AAAINQAAEDUIAAg1AAAINQAAEDUIAAg1AAAINQAAEDUIAAg1A==","atPC":"AAAg1AAAQNQgACDUAAAg1AAAQNQgACDUAAAg1AAAQNQgACDUAAAg1A=="},
"wakeTime" : 28718,
"sleepWakeUUID" : "29F31C3D-A78B-47A7-B1B1-D925526135E2",
"sip" : "enabled",
"exception" : {"codes":"0x0000000000000001, 0x0000000160f580ec","rawCodes":[1,5921669356],"type":"EXC_BREAKPOINT","signal":"SIGTRAP"},
"termination" : {"flags":0,"code":5,"namespace":"SIGNAL","indicator":"Trace\/BPT trap: 5","byProc":"exc handler","byPid":58641},
"os_fault" : {"process":"ChimeraX"},
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"name" : "_lzma.cpython-311-darwin.so"
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"name" : "_bz2.cpython-311-darwin.so"
},
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"path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/zlib.cpython-311-darwin.so",
"name" : "zlib.cpython-311-darwin.so"
},
{
"source" : "P",
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"uuid" : "39aa96c6-b691-3e20-9540-292b9dd1c861",
"path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_typing.cpython-311-darwin.so",
"name" : "_typing.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 4306550784,
"size" : 81920,
"uuid" : "3b2e1e73-f5e1-3fa3-80b3-e46009060893",
"path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/_datetime.cpython-311-darwin.so",
"name" : "_datetime.cpython-311-darwin.so"
},
{
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"uuid" : "51d31d0d-1dcc-31ad-b6c1-73d57e544a3a",
"path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/lib-dynload\/math.cpython-311-darwin.so",
"name" : "math.cpython-311-darwin.so"
},
{
"source" : "P",
"arch" : "arm64",
"base" : 4323147776,
"CFBundleShortVersionString" : "3.11.4, (c) 2001-2023 Python Software Foundation.",
"CFBundleIdentifier" : "org.python.python",
"size" : 3948544,
"uuid" : "88bffd37-99d8-36ab-9b95-9f54b30bd667",
"path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/Python",
"name" : "Python",
"CFBundleVersion" : "3.11.4"
},
{
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"arch" : "arm64",
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"CFBundleShortVersionString" : "1.8.0",
"CFBundleIdentifier" : "edu.ucsf.cgl.ChimeraX",
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"uuid" : "17982d98-65bc-3327-8526-577ec996453c",
"path" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"name" : "ChimeraX",
"CFBundleVersion" : "1.8.0.0"
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"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
"CFBundleVersion" : "2487.50.124"
},
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}
===== Log before crash start =====
UCSF ChimeraX version: 1.8.dev202404240553 (2024-04-24)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/jianrong/Downloads/fold_2024_05_09_14_30/fold_2024_05_09_14_30_model_0.cif
Chain information for fold_2024_05_09_14_30_model_0.cif #1
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_14_30/fold_2024_05_09_14_30_model_1.cif
Chain information for fold_2024_05_09_14_30_model_1.cif #2
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_14_30/fold_2024_05_09_14_30_model_2.cif
Chain information for fold_2024_05_09_14_30_model_2.cif #3
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_14_30/fold_2024_05_09_14_30_model_3.cif
Chain information for fold_2024_05_09_14_30_model_3.cif #4
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_14_30/fold_2024_05_09_14_30_model_4.cif
Chain information for fold_2024_05_09_14_30_model_4.cif #5
---
Chain | Description
A B C D | .
> hide #2 models
> hide #3 models
> hide #4 models
> hide #5 models
> select #4/A:1-1149
9120 atoms, 9330 bonds, 1149 residues, 1 model selected
> select #4/A:1-1149
9120 atoms, 9330 bonds, 1149 residues, 1 model selected
> select #4/A:1-1149
9120 atoms, 9330 bonds, 1149 residues, 1 model selected
> select /A:1-1149
45600 atoms, 46650 bonds, 5745 residues, 5 models selected
> color (#1 & sel) red
> select /B:1-1149
45600 atoms, 46650 bonds, 5745 residues, 5 models selected
> color (#1 & sel) yellow
> select /C:1-1149
45600 atoms, 46650 bonds, 5745 residues, 5 models selected
> color (#1 & sel) lime
> set bgColor white
> select clear
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_17/fold_2024_05_09_15_17_model_0.cif
Chain information for fold_2024_05_09_15_17_model_0.cif #6
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_17/fold_2024_05_09_15_17_model_1.cif
Chain information for fold_2024_05_09_15_17_model_1.cif #7
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_17/fold_2024_05_09_15_17_model_2.cif
Chain information for fold_2024_05_09_15_17_model_2.cif #8
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_17/fold_2024_05_09_15_17_model_3.cif
Chain information for fold_2024_05_09_15_17_model_3.cif #9
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_17/fold_2024_05_09_15_17_model_4.cif
Chain information for fold_2024_05_09_15_17_model_4.cif #10
---
Chain | Description
A B C D | .
> hide #1 models
> hide #10 models
> hide #9 models
> hide #8 models
> hide #7 models
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> select #6/A
5169 atoms, 5273 bonds, 670 residues, 1 model selected
> color sel red
> select #6/B
5169 atoms, 5273 bonds, 670 residues, 1 model selected
> hide #6 models
> show #1 models
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_47/fold_2024_05_09_15_47_model_0.cif
Chain information for fold_2024_05_09_15_47_model_0.cif #11
---
Chain | Description
A B C | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_47/fold_2024_05_09_15_47_model_1.cif
Chain information for fold_2024_05_09_15_47_model_1.cif #12
---
Chain | Description
A B C | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_47/fold_2024_05_09_15_47_model_2.cif
Chain information for fold_2024_05_09_15_47_model_2.cif #13
---
Chain | Description
A B C | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_47/fold_2024_05_09_15_47_model_3.cif
Chain information for fold_2024_05_09_15_47_model_3.cif #14
---
Chain | Description
A B C | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_47/fold_2024_05_09_15_47_model_4.cif
Chain information for fold_2024_05_09_15_47_model_4.cif #15
---
Chain | Description
A B C | .
> hide #1 models
> hide #12 models
> hide #13 models
> hide #14 models
> hide #15 models
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_52/fold_2024_05_09_15_52_model_0.cif
Chain information for fold_2024_05_09_15_52_model_0.cif #16
---
Chain | Description
A B C D E | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_52/fold_2024_05_09_15_52_model_1.cif
Chain information for fold_2024_05_09_15_52_model_1.cif #17
---
Chain | Description
A B C D E | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_52/fold_2024_05_09_15_52_model_2.cif
Chain information for fold_2024_05_09_15_52_model_2.cif #18
---
Chain | Description
A B C D E | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_52/fold_2024_05_09_15_52_model_3.cif
Chain information for fold_2024_05_09_15_52_model_3.cif #19
---
Chain | Description
A B C D E | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_52/fold_2024_05_09_15_52_model_4.cif
Chain information for fold_2024_05_09_15_52_model_4.cif #20
---
Chain | Description
A B C D E | .
> hide #11 models
> hide #16-20 atoms
> show #16-20 cartoons
> hide #17 models
> hide #18 models
> hide #19 models
> hide #20 models
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_59/fold_2024_05_09_15_59_model_0.cif
Chain information for fold_2024_05_09_15_59_model_0.cif #21
---
Chain | Description
A B | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_59/fold_2024_05_09_15_59_model_1.cif
Chain information for fold_2024_05_09_15_59_model_1.cif #22
---
Chain | Description
A B | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_59/fold_2024_05_09_15_59_model_2.cif
Chain information for fold_2024_05_09_15_59_model_2.cif #23
---
Chain | Description
A B | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_59/fold_2024_05_09_15_59_model_3.cif
Chain information for fold_2024_05_09_15_59_model_3.cif #24
---
Chain | Description
A B | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_15_59/fold_2024_05_09_15_59_model_4.cif
Chain information for fold_2024_05_09_15_59_model_4.cif #25
---
Chain | Description
A B | .
> hide #16 models
> hide #22 models
> hide #23 models
> hide #24 models
> hide #25 models
> hide #21 models
> show #1 models
> open
> /Users/jianrong/Downloads/fold_2024_05_09_16_15/fold_2024_05_09_16_15_model_0.cif
Chain information for fold_2024_05_09_16_15_model_0.cif #26
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_16_15/fold_2024_05_09_16_15_model_1.cif
Chain information for fold_2024_05_09_16_15_model_1.cif #27
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_16_15/fold_2024_05_09_16_15_model_2.cif
Chain information for fold_2024_05_09_16_15_model_2.cif #28
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_16_15/fold_2024_05_09_16_15_model_3.cif
Chain information for fold_2024_05_09_16_15_model_3.cif #29
---
Chain | Description
A B C D | .
> open
> /Users/jianrong/Downloads/fold_2024_05_09_16_15/fold_2024_05_09_16_15_model_4.cif
Chain information for fold_2024_05_09_16_15_model_4.cif #30
---
Chain | Description
A B C D | .
> hide #1 models
> hide #27 models
> hide #28 models
> hide #29 models
> hide #30 models
> hide #26 models
> show #21 models
> hide #21 models
> show #30 models
> hide #30 models
> show #1 models
> open /Users/jianrong/Downloads/cryosparc_P171_J150_005_volume_map_sharp.mrc
Opened cryosparc_P171_J150_005_volume_map_sharp.mrc as #31, grid size
256,256,256, pixel 1.06, shown at level 0.382, step 1, values float32
> hide #1 models
> view
> volume #31 level 0.2192
> volume #31 level 0.3615
> volume #31 level 0.487
> volume #31 level 0.3112
> open /Users/jianrong/Downloads/cryosparc_P171_J149_003_volume_map_sharp.mrc
Opened cryosparc_P171_J149_003_volume_map_sharp.mrc as #32, grid size
256,256,256, pixel 1.06, shown at level 0.355, step 1, values float32
> volume #32 level 0.09988
> ui tool show "Side View"
> hide #!32 models
> show #1 models
> ui tool show "Side View"
> show #2 models
> open 5TJI
Summary of feedback from opening 5TJI fetched from pdb
---
note | Fetching compressed mmCIF 5tji from
http://files.rcsb.org/download/5tji.cif
5tji title:
Ca2+ bound aplysia Slo1 [more info...]
Chain information for 5tji #33
---
Chain | Description | UniProt
A | High conductance calcium-activated potassium channel | Q5QJC5_APLCA 1-1070
Non-standard residues in 5tji #33
---
PGW —
(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl
(9Z)-octadec-9-enoate (1-Palmitoyl-2-Oleoyl-sn-
Glycero-3-[Phospho-(1-glycerol)]; PHOSPHATIDYLGLYCEROL)
5tji mmCIF Assemblies
---
1| author_defined_assembly
> open 5TJ6
Summary of feedback from opening 5TJ6 fetched from pdb
---
note | Fetching compressed mmCIF 5tj6 from
http://files.rcsb.org/download/5tj6.cif
5tj6 title:
Ca2+ bound aplysia Slo1 [more info...]
Chain information for 5tj6 #34
---
Chain | Description | UniProt
A | High conductance calcium-activated potassium channel | Q5QJC5_APLCA 1-1070
Non-standard residues in 5tj6 #34
---
CA — calcium ion
K — potassium ion
MG — magnesium ion
PGW —
(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl
(9Z)-octadec-9-enoate (1-Palmitoyl-2-Oleoyl-sn-
Glycero-3-[Phospho-(1-glycerol)]; PHOSPHATIDYLGLYCEROL)
5tj6 mmCIF Assemblies
---
1| author_defined_assembly
> ui tool show Matchmaker
> matchmaker #!34 to #33
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 5tji, chain A (#33) with 5tj6, chain A (#34), sequence alignment
score = 5069.5
RMSD between 478 pruned atom pairs is 0.926 angstroms; (across all 881 pairs:
3.080)
> ui tool show Matchmaker
> matchmaker #1-5 to #33
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 5tji, chain A (#33) with fold_2024_05_09_14_30_model_0.cif, chain A
(#1), sequence alignment score = 2473.1
RMSD between 432 pruned atom pairs is 1.051 angstroms; (across all 875 pairs:
3.969)
Matchmaker 5tji, chain A (#33) with fold_2024_05_09_14_30_model_1.cif, chain B
(#2), sequence alignment score = 2420.1
RMSD between 437 pruned atom pairs is 1.050 angstroms; (across all 877 pairs:
4.317)
Matchmaker 5tji, chain A (#33) with fold_2024_05_09_14_30_model_2.cif, chain D
(#3), sequence alignment score = 2491
RMSD between 437 pruned atom pairs is 1.066 angstroms; (across all 874 pairs:
4.246)
Matchmaker 5tji, chain A (#33) with fold_2024_05_09_14_30_model_3.cif, chain A
(#4), sequence alignment score = 2457.5
RMSD between 428 pruned atom pairs is 1.061 angstroms; (across all 875 pairs:
3.771)
Matchmaker 5tji, chain A (#33) with fold_2024_05_09_14_30_model_4.cif, chain A
(#5), sequence alignment score = 2477.5
RMSD between 442 pruned atom pairs is 1.092 angstroms; (across all 875 pairs:
3.936)
> hide #2 models
> view
> hide #!34 models
> show #!34 models
> hide #!34 models
> show #!34 models
> hide #!34 models
> hide #!33 models
> show #!33 models
> hide #!33 models
> color #33 #53b327ff
> show #!33 models
> hide #!33 models
> show #!34 models
> color #33 #b0aeb3ff
> color #34 #cebfb8ff
> open 7YO2
Summary of feedback from opening 7YO2 fetched from pdb
---
note | Fetching compressed mmCIF 7yo2 from
http://files.rcsb.org/download/7yo2.cif
7yo2 title:
Cryo-EM structure of RCK1-RCK2 mutated human Slo1 apo [more info...]
Chain information for 7yo2 #35
---
Chain | Description | UniProt
A B C D | Calcium-activated potassium channel subunit alpha-1 |
A0A1W2PRB0_HUMAN 1-1056
> ui tool show Matchmaker
> matchmaker #1-5 to #35
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 7yo2, chain A (#35) with fold_2024_05_09_14_30_model_0.cif, chain A
(#1), sequence alignment score = 2769.8
RMSD between 441 pruned atom pairs is 1.003 angstroms; (across all 871 pairs:
5.347)
Matchmaker 7yo2, chain B (#35) with fold_2024_05_09_14_30_model_1.cif, chain B
(#2), sequence alignment score = 2744.4
RMSD between 430 pruned atom pairs is 0.965 angstroms; (across all 871 pairs:
5.652)
Matchmaker 7yo2, chain A (#35) with fold_2024_05_09_14_30_model_2.cif, chain B
(#3), sequence alignment score = 2782.5
RMSD between 434 pruned atom pairs is 0.984 angstroms; (across all 871 pairs:
5.441)
Matchmaker 7yo2, chain A (#35) with fold_2024_05_09_14_30_model_3.cif, chain A
(#4), sequence alignment score = 2763
RMSD between 435 pruned atom pairs is 0.966 angstroms; (across all 871 pairs:
5.141)
Matchmaker 7yo2, chain B (#35) with fold_2024_05_09_14_30_model_4.cif, chain A
(#5), sequence alignment score = 2773.2
RMSD between 435 pruned atom pairs is 0.972 angstroms; (across all 871 pairs:
5.371)
> hide #!34 models
> hide #1 models
> show #2 models
> hide #2 models
> show #1 models
> hide #1 models
> show #2 models
> hide #2 models
> show #3 models
> hide #!35 models
> hide #3 models
> show #4 models
> show #1 models
> hide #1 models
> hide #4 models
> show #!33 models
> show #!34 models
> hide #!34 models
> hide #!33 models
> show #!35 models
> hide #!35 models
> show #1 models
> show #!35 models
> ui tool show Matchmaker
> matchmaker #!33 to #1
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_2024_05_09_14_30_model_0.cif, chain A (#1) with 5tji, chain A
(#33), sequence alignment score = 2473.1
RMSD between 432 pruned atom pairs is 1.051 angstroms; (across all 875 pairs:
3.969)
> show #!33 models
> hide #!35 models
===== Log before crash end =====
Log:
Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7.1 (2024-01-23)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88
OpenGL renderer: Apple M1 Max
OpenGL vendor: Apple
Python: 3.11.2
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro18,4
Model Number: Z15H000PEZP/A
Chip: Apple M1 Max
Total Number of Cores: 10 (8 performance and 2 efficiency)
Memory: 64 GB
System Firmware Version: 10151.101.3
OS Loader Version: 10151.101.3
Software:
System Software Overview:
System Version: macOS 14.4.1 (23E224)
Kernel Version: Darwin 23.4.0
Time since boot: 10 hours, 43 minutes
Graphics/Displays:
Apple M1 Max:
Chipset Model: Apple M1 Max
Type: GPU
Bus: Built-In
Total Number of Cores: 32
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
DELL D2720DS:
Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
UI Looks like: 2560 x 1440 @ 60.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.4.1
Babel: 2.14.0
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
blosc2: 2.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.3
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.13
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.2
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.49.1
ChimeraX-AtomicLibrary: 12.1.5
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.10.5
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.2
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.3.2
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.3.2
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.5
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.7.1
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2
ChimeraX-DistMonitor: 1.4
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: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.8
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.1.4
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: 2.1.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.6.1
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.14
ChimeraX-ModelPanel: 1.4
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-Neuron: 1.0
ChimeraX-Nifti: 1.1
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.1
ChimeraX-PDB: 2.7.3
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
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
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-SelInspector: 1.0
ChimeraX-SeqView: 2.11
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.2
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.12.4
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.33.3
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.2
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: 1.1.3
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.1
contourpy: 1.2.0
cxservices: 1.2.2
cycler: 0.12.1
Cython: 0.29.33
debugpy: 1.8.0
decorator: 5.1.1
docutils: 0.19
executing: 2.0.1
filelock: 3.9.0
fonttools: 4.47.2
funcparserlib: 2.0.0a0
glfw: 2.6.4
grako: 3.16.5
h5py: 3.10.0
html2text: 2020.1.16
idna: 3.6
ihm: 0.38
imagecodecs: 2023.9.18
imagesize: 1.4.1
ipykernel: 6.23.2
ipython: 8.14.0
ipython-genutils: 0.2.0
ipywidgets: 8.1.1
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.2.0
jupyter-core: 5.7.1
jupyterlab-widgets: 3.0.9
kiwisolver: 1.4.5
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.4
matplotlib: 3.7.2
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.6.0
netCDF4: 1.6.2
networkx: 3.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.8
numpy: 1.25.1
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 10.2.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 4.1.0
prompt-toolkit: 3.0.43
psutil: 5.9.5
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.16.1
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.2801
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.3.1
PyQt6-Qt6: 6.3.2
PyQt6-sip: 13.4.0
PyQt6-WebEngine-commercial: 6.3.1
PyQt6-WebEngine-Qt6: 6.3.2
python-dateutil: 2.8.2
pytz: 2023.3.post1
pyzmq: 25.1.2
qtconsole: 5.4.3
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.11.1
setuptools: 67.4.0
setuptools-scm: 7.0.5
sfftk-rw: 0.7.3
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.5.0
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2023.7.18
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.4
traitlets: 5.9.0
typing-extensions: 4.9.0
tzdata: 2023.4
urllib3: 2.1.0
wcwidth: 0.2.13
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.9
Change History (2)
comment:1 by , 17 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Window Toolkit |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash changing Mac display configuration |
comment:2 by , 17 months ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
There are about 14 of these Mac display configuration crashes reported, the earliest March 20, 2024 right after the AlphaFold fix that required users get a daily build. Those March ones were with Qt 6.6.2 and most later ones with Qt 6.6.3. I suspect it is a bug in all Qt 6.6 versions. Not sure why May has 9 crashes, April 4, March 2. Several are on macOS 14.2 and some as new as macOS 14.5. Most have a second display connected.
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Reported with 1.7.1 but crashed with 1.8