![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 13 months ago
Closed 13 months ago
#15997 closed defect (duplicate)
Crash on Mac waking from sleep
| 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-15.0-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
{"app_name":"ChimeraX","timestamp":"2024-09-23 18:35:12.00 +0200","app_version":"1.8.0","slice_uuid":"194a3167-3db5-3029-8d22-1d742b826bb9","build_version":"1.8.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":1,"is_first_party":0,"bug_type":"309","os_version":"macOS 15.0 (24A335)","roots_installed":0,"name":"ChimeraX","incident_id":"4091F13E-8BC9-499B-B576-FC16F42D316C"}
{
"uptime" : 34000,
"procRole" : "Foreground",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookPro15,2",
"coalitionID" : 14981,
"osVersion" : {
"train" : "macOS 15.0",
"build" : "24A335",
"releaseType" : "User"
},
"captureTime" : "2024-09-23 18:34:59.7336 +0200",
"codeSigningMonitor" : 0,
"incident" : "4091F13E-8BC9-499B-B576-FC16F42D316C",
"pid" : 10271,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-09-23 17:17:49.5322 +0200",
"procStartAbsTime" : 29660444897169,
"procExitAbsTime" : 34290601176503,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"2D1D3C45-E2CD-50DC-B3E4-890A9DF5387C","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "C9E08316-F481-AE51-0088-DBB74F890D4B",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"bootSessionUUID" : "5E9B77DE-7EB6-4FAA-BDBD-1FBFF4BAFD97",
"wakeTime" : 23155,
"bridgeVersion" : {"build":"22P353","train":"9.0"},
"sleepWakeUUID" : "48D74839-510D-4A86-BE90-6D6C39887113",
"sip" : "enabled",
"exception" : {"codes":"0x0000000000000002, 0x0000000000000000","rawCodes":[2,0],"type":"EXC_BREAKPOINT","signal":"SIGTRAP"},
"termination" : {"flags":0,"code":5,"namespace":"SIGNAL","indicator":"Trace\/BPT trap: 5","byProc":"exc handler","byPid":10271},
"os_fault" : {"process":"ChimeraX"},
"ktriageinfo" : "VM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\nVM - (arg = 0x3) mach_vm_allocate_kernel failed within call to vm_map_enter\n",
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"faultingThread" : 0,
"threads" : 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"SIRI_DIALOG_ASSETS" : "64a57d23fa6fd41b2353e2ae"
},
"deploymentId" : 240000034
},
{
"rolloutId" : "61675b89201f677a9a4cbd65",
"factorPackIds" : {
"HEALTH_FEATURE_AVAILABILITY" : "65a855f5f087695cfac03d1f"
},
"deploymentId" : 240000142
}
],
"experiments" : [
{
"treatmentId" : "c47ab4cc-c9c3-4b5d-a87c-e2433ce02597",
"experimentId" : "6639bc6ba73d460582162323",
"deploymentId" : 400000006
},
{
"treatmentId" : "45f4e2a5-551b-4bc2-a2dc-19c244dda8f8",
"experimentId" : "6643969b3099cf28e049862f",
"deploymentId" : 400000007
}
]
}
}
===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/lau/Downloads/5huu.cif
5huu.cif title:
Structure of Candida albicans trehalose-6-phosphate synthase in complex with
UDP and glucose-6-phosphate [more info...]
Chain information for 5huu.cif #1
---
Chain | Description | UniProt
A B | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] | TPS1_CANAL 1-478
Non-standard residues in 5huu.cif #1
---
G6P — 6-O-phosphono-alpha-D-glucopyranose (ALPHA-D-GLUCOSE-6-PHOSPHATE;
6-O-phosphono-alpha-D-glucose; 6-O-phosphono-D-glucose; 6-O-phosphono-glucose)
UDP — uridine-5'-diphosphate
5huu.cif mmCIF Assemblies
---
1| author_defined_assembly
2| software_defined_assembly
> sym #1 assembly 1
Made 2 copies for 5huu.cif assembly 1
> view
> sym #1 assembly 1
Made 2 copies for 5huu.cif assembly 1
> view
> sym #1 assembly 2
Made 2 copies for 5huu.cif assembly 2
> view
> sym #1 assembly 2
Made 2 copies for 5huu.cif assembly 2
> view
> show #!1 models
> hide #!3 models
> hide #!4 models
> hide #!5 models
> hide #!5.1 models
> hide #!5.2 models
> hide #!4.2 models
> hide #!4.1 models
> hide #!3.2 models
> hide #!3.1 models
> hide #!1 models
> hide #!2.2 models
> hide #!2.1 models
> hide #!2 models
> hide #1.1 models
> show #!1 models
> show #1.1 models
> hide #1.1 models
> close #3
> close #5
> select /B
14872 atoms, 15124 bonds, 12 pseudobonds, 1908 residues, 8 models selected
> select add #2.1
18738 atoms, 19052 bonds, 12 pseudobonds, 2410 residues, 9 models selected
> ui tool show "Show Sequence Viewer"
> sequence chain #1/A #1/B #2.1/A #2.2/B #4.1/A #4.1/B #4.2/A #4.2/B
Alignment identifier is 1
> select
> #1/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #2.1/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #2.2/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #4.1/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #4.2/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
5332 atoms, 5324 bonds, 4 pseudobonds, 672 residues, 9 models selected
> select #1/A-B:27 #2.1/A:27 #2.2/B:27 #4.1/A-B:27 #4.2/A-B:27
96 atoms, 96 bonds, 8 residues, 5 models selected
> select
> #1/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #2.1/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #2.2/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #4.1/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #4.2/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
17504 atoms, 17784 bonds, 2136 residues, 5 models selected
> select #1/A-B:89 #2.1/A:89 #2.2/B:89 #4.1/A-B:89 #4.2/A-B:89
96 atoms, 96 bonds, 8 residues, 5 models selected
> select #1/A-B:89 #2.1/A:89 #2.2/B:89 #4.1/A-B:89 #4.2/A-B:89
96 atoms, 96 bonds, 8 residues, 5 models selected
Alpha,alpha-trehalose-phosphate Synthase [UDP-forming] [ID: 1] region 8 chains
[89] RMSD: 40.948
> select /B:89
48 atoms, 48 bonds, 4 residues, 4 models selected
> select /B:89,285,379,387
152 atoms, 140 bonds, 16 residues, 4 models selected
> color (#!1 & sel) red
> open AF-Q9SYM4-F1 fromDatabase alphafold format mmcif
UniProt identifiers must be 6 or 10 characters long, got "AF-Q9SYM4-F1"
> open Q9SYM4 fromDatabase alphafold format mmcif
Summary of feedback from opening Q9SYM4 fetched from alphafold
---
note | Fetching AlphaFold database settings from https://www.rbvi.ucsf.edu/chimerax/data/status/alphafold_database3.json
Chain information for AlphaFold Q9SYM4 #3
---
Chain | Description | UniProt
A | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1 | TPS1_ARATH 1-942
Color AlphaFold Q9SYM4 by residue attribute pLDDT_score
> close #1
> show #!2 target m
> show #!2.1 target m
> ui tool show Matchmaker
> matchmaker #3 to #2.1
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 5huu.cif, chain A (#2.1) with AlphaFold Q9SYM4, chain A (#3),
sequence alignment score = 1495.7
RMSD between 394 pruned atom pairs is 0.829 angstroms; (across all 462 pairs:
1.944)
> color #3 #ff2ad5ff
> color #3 #4eff70ff
> color #3 #3bbf54ff
> color #3 #184f23ff
> color #3 #004c2fff
> select /B:89,285,379,387
114 atoms, 105 bonds, 12 residues, 3 models selected
> color #2.1 #dba071ff
> color #2.1 #dbd4c1ff
> color #2.1 #dbd3bbff
> select #2.1:89,285,379,387
38 atoms, 35 bonds, 4 residues, 1 model selected
> color sel lime
> select #2.2
3718 atoms, 3781 bonds, 3 pseudobonds, 477 residues, 2 models selected
> show #!2.2 models
> 379
Unknown command: 379
> select #2.2:89,285,379,387
38 atoms, 35 bonds, 4 residues, 1 model selected
> hide #!2.2 models
> color #3 #00a76fff
> color #3 #008659ff
> color #3 #008559ff
> color #3 #00312fff
> color #3 #007974ff
> color #3 #007a75ff
> color #3 #004c2fff
> color #3 #00c176ff
> color #3 #67c19aff
> color #3 #5ec186ff
> color #3 #83c188ff
> color #3 #40c154ff
> color #3 #50c145ff
> color #3 #6ec177ff
> color #3 #71c175ff
> color #3 #7fc178ff
> color #3 #33c129ff
> color #3 #155011ff
> color #3 #175813ff
> color #3 #1c582dff
> color #3 #1c412dff
> color #3 #1c3f2dff
> color #3 #1c3f2dc7
> color #3 #1c3f2dd0
> color #3 #1c652dd0
> color #3 #1c6541d0
> select #2.1 /A
3866 atoms, 3928 bonds, 502 residues, 1 model selected
> select #2.1 /A G6P
Expected a keyword
> select #2.1 /A:G6P
27 atoms, 27 bonds, 1 residue, 1 model selected
> color sel cyan
> select #2.1 /A:UDP
36 atoms, 37 bonds, 1 residue, 1 model selected
> color sel cyan
> ui tool show "Side View"
> select clear
> select subtract #2.1.1
Nothing selected
> select add #3
7462 atoms, 7624 bonds, 942 residues, 1 model selected
> select subtract #2.1.1
7462 atoms, 7624 bonds, 942 residues, 1 model selected
> log metadata #3
The model has no metadata
> log chains #3
Chain information for AlphaFold Q9SYM4 #3
---
Chain | Description | UniProt
A | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1 | TPS1_ARATH 1-942
> select #3
7462 atoms, 7624 bonds, 942 residues, 1 model selected
> select #3:176,374,468,476
38 atoms, 35 bonds, 4 residues, 1 model selected
> show sel atoms
> color sel light sea green
> select clear
> select #2.1 /A:UDP
36 atoms, 37 bonds, 1 residue, 1 model selected
> color sel red
> select #2.1 /A:G6P
27 atoms, 27 bonds, 1 residue, 1 model selected
> color sel red
> select #3:176,374,468,476
38 atoms, 35 bonds, 4 residues, 1 model selected
> color sel light sea green
> color #3 #1cbe93ff
> select clear
> select #2.1 /B: 89
Nothing selected
> select #2.1 /B:89
Nothing selected
> select #2.1 89
Expected a keyword
> select #2.1 /B
Nothing selected
> select #2.2:89,285,379,387
38 atoms, 35 bonds, 4 residues, 1 model selected
> select #2.1:89,285,379,387
38 atoms, 35 bonds, 4 residues, 1 model selected
> color sel gray
> color sel dim gray
> select #2.1
3866 atoms, 3928 bonds, 502 residues, 1 model selected
> color sel gray
> select #3
7462 atoms, 7624 bonds, 942 residues, 1 model selected
> color sel light sea green
> select #2.1 /A:G6P
27 atoms, 27 bonds, 1 residue, 1 model selected
> select #2.1 /A:G6P,UDP
63 atoms, 64 bonds, 2 residues, 1 model selected
> color sel orange red
> color sel red
> select clear
> select #3
7462 atoms, 7624 bonds, 942 residues, 1 model selected
> select #3: 176,374,468,476
38 atoms, 35 bonds, 4 residues, 1 model selected
> color sel medium blue
> select #2.1: 89,285,468,476
33 atoms, 32 bonds, 3 residues, 1 model selected
> color sel white
> select #2.1: 89,285,379,476
29 atoms, 27 bonds, 3 residues, 1 model selected
> color sel white
> select #2.1: 89,285,379,387
38 atoms, 35 bonds, 4 residues, 1 model selected
> color sel white
> show sel cartoons
> show sel atoms
> select #2.1: 89,285,379,387
38 atoms, 35 bonds, 4 residues, 1 model selected
> label sel text "/{0.chain_id} {0.name} {0.number}{0.insertion_code}"
> label sel residues bgColor grey
> label sel residues height 1
> select #3: 176,374,468,476
38 atoms, 35 bonds, 4 residues, 1 model selected
> label sel residues bgColor blue
> label sel residues height 1
> ui tool show "Side View"
> label sel residues height 0.8
> select #3: 119
5 atoms, 4 bonds, 1 residue, 1 model selected
> color sel yellow
> show sel atoms
> save /Users/lau/Desktop/image1.png supersample 3
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 INTEL-23.0.21
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655
OpenGL vendor: Intel Inc.
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: MacBookPro15,2
Processor Name: Quad-Core Intel Core i5
Processor Speed: 2.3 GHz
Number of Processors: 1
Total Number of Cores: 4
L2 Cache (per Core): 256 KB
L3 Cache: 6 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 2069.0.0.0.0 (iBridge: 22.16.10353.0.0,0)
OS Loader Version: 582~1023
Software:
System Software Overview:
System Version: macOS 15.0 (24A335)
Kernel Version: Darwin 24.0.0
Time since boot: 1 day, 36 minutes
Graphics/Displays:
Intel Iris Plus Graphics 655:
Chipset Model: Intel Iris Plus Graphics 655
Type: GPU
Bus: Built-In
VRAM (Dynamic, Max): 1536 MB
Vendor: Intel
Device ID: 0x3ea5
Revision ID: 0x0001
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
DELL P2425:
Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
UI Looks like: 1920 x 1200 @ 60.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: BNPC304
Mirror: Off
Online: Yes
Rotation: Supported
Connection Type: DVI or HDMI
Adapter Firmware Version: 7.55
DELL P2425:
Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
UI Looks like: 1920 x 1200 @ 59.00Hz
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Display Serial Number: 1CRC304
Mirror: Off
Online: Yes
Rotation: Supported
Connection Type: Thunderbolt/DisplayPort
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
Babel: 2.15.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4
charset-normalizer: 3.3.2
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: 2.12.7
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.57.1
ChimeraX-AtomicLibrary: 14.0.6
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.4.6
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.12.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.7
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: 2.2.4
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: 1.8
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.3
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.4
ChimeraX-DiffPlot: 1.0
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: 1.1.1
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: 1.1.10
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.2
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: 2.1.3
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.1
ChimeraX-MedicalToolbar: 1.0.3
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.1
ChimeraX-MMTF: 2.2
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-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.5
ChimeraX-PDB: 2.7.5
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: 1.1.1
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.4.1
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-Segmentations: 3.0.15
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.11.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.16.5
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: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.39.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.3
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: 1.2.1
cxservices: 1.2.2
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.1
decorator: 5.1.1
docutils: 0.20.1
executing: 2.0.1
filelock: 3.13.4
fonttools: 4.53.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.11.0
html2text: 2024.2.26
idna: 3.7
ihm: 1.0
imagecodecs: 2024.1.1
imagesize: 1.4.1
ipykernel: 6.29.2
ipython: 8.21.0
ipywidgets: 8.1.3
jedi: 0.19.1
jinja2: 3.1.4
jupyter-client: 8.6.0
jupyter-core: 5.7.2
jupyterlab-widgets: 3.0.11
kiwisolver: 1.4.5
line-profiler: 4.1.2
lxml: 5.2.1
lz4: 4.3.3
MarkupSafe: 2.1.5
matplotlib: 3.8.4
matplotlib-inline: 0.1.7
msgpack: 1.0.8
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.0
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: 10.3.0
pip: 24.0
pkginfo: 1.10.0
platformdirs: 4.2.2
prompt-toolkit: 3.0.47
psutil: 5.9.8
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pygments: 2.17.2
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.1.2
pyproject-hooks: 1.1.0
PyQt6-commercial: 6.6.1
PyQt6-Qt6: 6.6.3
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.6.0
PyQt6-WebEngine-Qt6: 6.6.3
python-dateutil: 2.9.0.post0
pytz: 2024.1
pyzmq: 26.0.3
qtconsole: 5.5.1
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.13.0
setuptools: 69.5.1
setuptools-scm: 8.0.4
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 7.2.6
sphinx-autodoc-typehints: 2.0.1
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: 0.6.3
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2024.1.30
tinyarray: 1.2.4
tornado: 6.4.1
traitlets: 5.14.2
typing-extensions: 4.12.2
tzdata: 2024.1
urllib3: 2.2.1
wcwidth: 0.2.13
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.11
Change History (2)
comment:1 by , 13 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 , 13 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Mac Qt 6.6 crash in _NSViewHierarchyDidChangeBackingProperties connecting or disconnecting display or waking from sleep.