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Opened 4 years ago
Closed 4 years ago
#5806 closed defect (can't reproduce)
Crash registering webcam command
| Reported by: | Owned by: | Greg Couch | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Command Line | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.3.dev202107280209 (2021-07-28 02:09:52 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 0x000000010e3b7600 (most recent call first):
File "", line 228 in _call_with_frames_removed
File "", line 1173 in create_module
File "", line 565 in module_from_spec
File "", line 666 in _load_unlocked
File "", line 986 in _find_and_load_unlocked
File "", line 1007 in _find_and_load
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/Qt/QtMultimedia.py", line 4 in
File "", line 228 in _call_with_frames_removed
File "", line 850 in exec_module
File "", line 680 in _load_unlocked
File "", line 986 in _find_and_load_unlocked
File "", line 1007 in _find_and_load
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/webcam/webcam.py", line 424 in
File "", line 228 in _call_with_frames_removed
File "", line 850 in exec_module
File "", line 680 in _load_unlocked
File "", line 986 in _find_and_load_unlocked
File "", line 1007 in _find_and_load
File "", line 228 in _call_with_frames_removed
File "", line 1058 in _handle_fromlist
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/webcam/__init__.py", line 20 in register_command
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/toolshed/__init__.py", line 1271 in register_command
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 312 in _register_cmd
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 302 in cb
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2105 in call
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2174 in lazy_register
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 3432 in find_aliases
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 3442 in find_aliases
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 3448 in list_aliases
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/session.py", line 392 in take_snapshot
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/session.py", line 281 in process
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/session.py", line 260 in discovery
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/session.py", line 608 in save
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/session.py", line 878 in save
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core_formats/__init__.py", line 82 in save
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 88 in provider_save
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 75 in cmd_save
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/commands/run.py", line 36 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 51 in display
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 127 in show_save_file_dialog
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/toolbar/providers.py", line 27 in _file_save
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/toolbar/providers.py", line 45 in run_provider
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/toolbar/__init__.py", line 37 in run_provider
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/toolshed/__init__.py", line 1287 in run_provider
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/toolshed/info.py", line 379 in run_provider
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/toolbar/tool.py", line 165 in callback
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 295 in event_loop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 880 in init
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1029 in
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main
{"app_name":"ChimeraX","timestamp":"2021-12-18 00:15:20.00 +0100","app_version":"1.3.0","slice_uuid":"9596eff5-d2be-396c-9c4e-6177235c3dae","build_version":"1.3.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":1,"is_first_party":0,"bug_type":"309","os_version":"macOS 12.0.1 (21A559)","incident_id":"0F23553B-B642-4A81-960B-BCEB48A1A65B","name":"ChimeraX"}
{
"uptime" : 190000,
"procLaunch" : "2021-12-17 23:15:01.6852 +0100",
"procRole" : "Foreground",
"version" : 2,
"userID" : 502,
"deployVersion" : 210,
"modelCode" : "MacBookPro15,2",
"procStartAbsTime" : 187787631529447,
"coalitionID" : 17231,
"osVersion" : {
"train" : "macOS 12.0.1",
"build" : "21A559",
"releaseType" : "User"
},
"captureTime" : "2021-12-18 00:14:04.8184 +0100",
"incident" : "0F23553B-B642-4A81-960B-BCEB48A1A65B",
"bug_type" : "309",
"pid" : 38109,
"procExitAbsTime" : 191330669263148,
"cpuType" : "X86-64",
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.3.0","CFBundleVersion":"1.3.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"10596464-2B5D-54DA-9D5F-AF7DE20D5475","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "F3393346-4E79-1CE3-B49B-B5954C451C84",
"wakeTime" : 5052,
"bridgeVersion" : {"build":"19P549","train":"6.0"},
"sleepWakeUUID" : "C6839678-0135-421D-95F8-95CC3AD48ECE",
"sip" : "enabled",
"vmRegionInfo" : "0x20 is not in any region. Bytes before following region: 4298407904\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 100348000-100349000 [ 4K] r-x\/r-x SM=COW ...acOS\/ChimeraX",
"isCorpse" : 1,
"exception" : {"codes":"0x0000000000000001, 0x0000000000000020","rawCodes":[1,32],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000020"},
"vmregioninfo" : "0x20 is not in any region. Bytes before following region: 4298407904\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n __TEXT 100348000-100349000 [ 4K] r-x\/r-x SM=COW ...acOS\/ChimeraX",
"extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
"faultingThread" : 0,
"threads" : 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"name" : "CoreFoundation",
"CFBundleVersion" : "1855.105"
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"uuid" : "4163a93f-bf71-3219-80ed-6f65e9266b81",
"path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
"name" : "HIToolbox"
},
{
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"arch" : "x86_64",
"base" : 140703620669440,
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"CFBundleIdentifier" : "com.apple.AppKit",
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"uuid" : "dd0028a3-78e3-3a8a-a51b-ddd68123adef",
"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
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"CFBundleIdentifier" : "edu.ucsf.cgl.ChimeraX",
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"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
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"sharedCache" : {
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"vmSummary" : "ReadOnly portion of Libraries: Total=1.4G resident=0K(0%) swapped_out_or_unallocated=1.4G(100%)\nWritable regions: Total=1.9G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.9G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 384K 3 \nActivity Tracing 256K 1 \nCG backing stores 2160K 4 \nCG image 524K 39 \nColorSync 244K 28 \nCoreAnimation 3980K 71 \nCoreGraphics 12K 2 \nCoreUI image data 5140K 39 \nFoundation 40K 2 \nKernel Alloc Once 8K 1 \nMALLOC 1.3G 965 \nMALLOC guard page 32K 8 \nMALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated)\nMach message 24K 4 \nOpenGL GLSL 384K 4 \nSTACK GUARD 96K 24 \nStack 140.2M 25 \nStack Guard 56.0M 1 \nVM_ALLOCATE 215.6M 148 \nVM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)\n__DATA 42.0M 674 \n__DATA_CONST 31.5M 343 \n__DATA_DIRTY 1639K 218 \n__FONT_DATA 4K 1 \n__GLSLBUILTINS 5176K 1 \n__LINKEDIT 729.1M 146 \n__OBJC_RO 81.5M 1 \n__OBJC_RW 3120K 2 \n__TEXT 744.1M 671 \n__UNICODE 588K 1 \ndyld private memory 1024K 1 \nmapped file 548.4M 70 \nshared memory 3492K 28 \n=========== ======= ======= \nTOTAL 4.1G 3529 \nTOTAL, minus reserved VM space 3.9G 3529 \n",
"legacyInfo" : {
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"name" : "CrBrowserMain",
"queue" : "com.apple.main-thread"
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},
"trialInfo" : {
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{
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"factorPackIds" : {
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}
}
===== Log before crash start =====
UCSF ChimeraX version: 1.3.dev202107280209 (2021-07-28)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/kelvinlau/Google Drive/Shared drives/Omi-Titan-Dec21-figures-
> andmaps/ChimeraXsession/sugar-sup-6XLU.cxs" format session
Opened emd_22251.map as #3, grid size 440,440,440, pixel 0.85, shown at level
0.0207, step 1, values float32
opened ChimeraX session
> select :643,655
132 atoms, 132 bonds, 12 residues, 2 models selected
> hide #!3 models
> show (#!1 & sel) target ab
> show #!3 models
> volume #3 level 0.02139
> close session
> open
> /Users/kelvinlau/Downloads/C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc
Opened C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc as #1, grid size
300,300,300, pixel 1.86, shown at level 0.0753, step 2, values float32
> volume #1 step 1
> volume #1 level 0.1063
> surface dust #1 size 18.6
> fetch pdb 7P40
Unknown command: fetch pdb 7P40
> getcrd pdb 7P40
Missing or invalid "atoms" argument: invalid atom specifier
> pdbimages 7P40
pdbimages is provided by the uninstalled bundle PDBImages versions 1.0 – 1.1
> open /Users/kelvinlau/Downloads/7p40.pdb
7p40.pdb title:
P5C3 is A potent fab neutralizer [more info...]
Chain information for 7p40.pdb #2
---
Chain | Description
A E G | spike glycoprotein
B D H | No description available
C F I | No description available
> volume planes z style image imageMode "full region"
> mousemode rightMode "move planes"
> volume planes z style image imageMode "full region"
> mousemode rightMode "move planes"
> volume #1 style image region all imageMode "tilted slab" tiltedSlabAxis
> 0,0,1 tiltedSlabOffset 279 tiltedSlabSpacing 1.86 tiltedSlabPlaneCount 10
> mousemode rightMode "rotate slab"
> volume #1 style surface
> hide atoms
> show atoms
> style stick
Changed 26466 atom styles
> nucleotides atoms
> style nucleic stick
Changed 0 atom styles
> show cartoons
> hide atoms
> ui tool show "Fit in Map"
Fit molecule 7p40.pdb (#2) to map
C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc (#1) using 26466 atoms
average map value = 0.1532, steps = 196
shifted from previous position = 48
rotated from previous position = 23.2 degrees
atoms outside contour = 12616, contour level = 0.10628
Position of 7p40.pdb (#2) relative to
C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc (#1) coordinates:
Matrix rotation and translation
0.93208336 0.33733377 -0.13200961 -8.53314766
-0.35432432 0.92479612 -0.13858720 171.72117040
0.07533183 0.17594904 0.98151263 -30.91167809
Axis 0.39936018 -0.26325715 -0.87818399
Axis point 449.51022512 90.38144541 0.00000000
Rotation angle (degrees) 23.19116726
Shift along axis -21.46848397
> transparency 50
> select #1
3 models selected
> ui mousemode right "translate selected models"
> select #2
26466 atoms, 27105 bonds, 21 pseudobonds, 3687 residues, 2 models selected
> select #1
3 models selected
> select #2
26466 atoms, 27105 bonds, 21 pseudobonds, 3687 residues, 2 models selected
> view matrix models
> #2,0.93208,0.33733,-0.13201,0.85102,-0.35432,0.9248,-0.13859,143.8,0.075332,0.17595,0.98151,22.512
> ui mousemode right select
> select clear
Fit molecule 7p40.pdb (#2) to map
C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc (#1) using 26466 atoms
average map value = 0.2745, steps = 228
shifted from previous position = 44.3
rotated from previous position = 51.3 degrees
atoms outside contour = 5450, contour level = 0.10628
Position of 7p40.pdb (#2) relative to
C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc (#1) coordinates:
Matrix rotation and translation
0.86046014 -0.50832398 0.03485810 184.75618913
0.50661829 0.84627081 -0.16481391 -19.25284509
0.05427947 0.15947555 0.98570852 -7.30543102
Axis 0.30430623 -0.01822459 0.95239991
Axis point 126.92205188 298.91793788 -0.00000000
Rotation angle (degrees) 32.19714321
Shift along axis 49.61564242
Drag select of 1 C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc , 8 residues
Drag select of 1 C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc , 1 residues
> hide #!2 models
> show #!2 models
> hide #!1 models
> select /A
7064 atoms, 7235 bonds, 7 pseudobonds, 998 residues, 2 models selected
> select /A,E
14128 atoms, 14470 bonds, 14 pseudobonds, 1996 residues, 2 models selected
> hide sel cartoons
> select /F,B,C,D
3516 atoms, 3600 bonds, 462 residues, 1 model selected
> hide sel cartoons
> show #!1 models
> hide #!1 models
> select :315-551
4329 atoms, 4443 bonds, 711 residues, 1 model selected
> color sel red
> show #!1 models
> select clear
Drag select of 1 C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc , 33 residues
> select clear
> hide #!1 models
> select : 339,371,373,375,417,440,477,478,493,498,484,496,501,505
207 atoms, 168 bonds, 42 residues, 1 model selected
> select :315-551
4329 atoms, 4443 bonds, 711 residues, 1 model selected
> color sel blue
> select : 339,371,373,375,417,440,477,478,493,498,484,496,501,505
207 atoms, 168 bonds, 42 residues, 1 model selected
> color sel red
> style sel sphere
Changed 207 atom styles
> show sel atoms
> select clear
Drag select of 136 atoms, 111 residues, 2 pseudobonds
> hide sel atoms
Drag select of 2 atoms
> hide sel atoms
Drag select of 2 residues
> show #!1 models
Drag select of 1 C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc , 13 residues
> select clear
> volume #1 change image level -0.04141,0 level 0.2509,0.8 level 0.7108,1
> volume #1 level 0.1264
> select clear
> save /Users/kelvinlau/Desktop/image1.png supersample 3
> turn y 180
> save /Users/kelvinlau/Desktop/image2.png supersample 3
> select clear
> save /Users/kelvinlau/Desktop/image3.png supersample 3
> select : 501,484,417
45 atoms, 36 bonds, 9 residues, 1 model selected
> color sel yellow
> select clear
Drag select of 1 C1_2Fab_Om_cryosparc_P24_J64_005_volume_map.mrc , 7 residues
> select clear
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> volume #1 level 0.0624
> save /Users/kelvinlau/P5C3-Fab-WT-dockedinto-double.cxs
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.3.dev202107280209 (2021-07-28)
© 2016-2021 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/kelvinlau/Downloads/cryosparc_P11_J81_005_volume_map.mrc
Opened cryosparc_P11_J81_005_volume_map.mrc as #1, grid size 400,400,400,
pixel 1.2, shown at level 0.071, step 2, values float32
OpenGL version: 4.1 INTEL-18.2.10
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655
OpenGL vendor: Intel Inc.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: 1715.40.15.0.0 (iBridge: 19.16.10549.0.0,0)
OS Loader Version: 540.40.4~45
Software:
System Software Overview:
System Version: macOS 12.0.1 (21A559)
Kernel Version: Darwin 21.1.0
Time since boot: 9 days 1:05
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 Family: Supported, Metal GPUFamily macOS 2
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
Locale: (None, 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
alabaster: 0.7.12
appdirs: 1.4.4
appnope: 0.1.2
Babel: 2.9.1
backcall: 0.2.0
blockdiag: 2.0.1
certifi: 2021.5.30
cftime: 1.5.0
chardet: 4.0.0
charset-normalizer: 2.0.3
ChimeraX-AddCharge: 1.1.4
ChimeraX-AddH: 2.1.10
ChimeraX-AlignmentAlgorithms: 2.0
ChimeraX-AlignmentHdrs: 3.2
ChimeraX-AlignmentMatrices: 2.0
ChimeraX-Alignments: 2.1
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.0
ChimeraX-Atomic: 1.27.1
ChimeraX-AtomicLibrary: 4.0
ChimeraX-AtomSearch: 2.0
ChimeraX-AtomSearchLibrary: 1.0
ChimeraX-AxesPlanes: 2.0
ChimeraX-BasicActions: 1.1
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 1.1.1
ChimeraX-BondRot: 2.0
ChimeraX-BugReporter: 1.0
ChimeraX-BuildStructure: 2.5.3
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.1
ChimeraX-ButtonPanel: 1.0
ChimeraX-CageBuilder: 1.0
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.1
ChimeraX-ChemGroup: 2.0
ChimeraX-Clashes: 2.1
ChimeraX-ColorActions: 1.0
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.3.2
ChimeraX-CommandLine: 1.1.4
ChimeraX-ConnectStructure: 2.0
ChimeraX-Contacts: 1.0
ChimeraX-Core: 1.3.dev202107280209
ChimeraX-CoreFormats: 1.0
ChimeraX-coulombic: 1.3
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0
ChimeraX-DataFormats: 1.2
ChimeraX-Dicom: 1.0
ChimeraX-DistMonitor: 1.1.4
ChimeraX-DistUI: 1.0
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ExperimentalCommands: 1.0
ChimeraX-FileHistory: 1.0
ChimeraX-FunctionKey: 1.0
ChimeraX-Geometry: 1.1
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.1
ChimeraX-Hbonds: 2.1
ChimeraX-Help: 1.1
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.1
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0
ChimeraX-Label: 1.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.4
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.1
ChimeraX-Map: 1.1
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0
ChimeraX-MapFilter: 2.0
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1
ChimeraX-Markers: 1.0
ChimeraX-Mask: 1.0
ChimeraX-MatchMaker: 1.2.1
ChimeraX-MDcrds: 2.4
ChimeraX-MedicalToolbar: 1.0.1
ChimeraX-Meeting: 1.0
ChimeraX-MLP: 1.1
ChimeraX-mmCIF: 2.3
ChimeraX-MMTF: 2.1
ChimeraX-Modeller: 1.0.2
ChimeraX-ModelPanel: 1.1
ChimeraX-ModelSeries: 1.0
ChimeraX-Mol2: 2.0
ChimeraX-Morph: 1.0
ChimeraX-MouseModes: 1.1
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.2
ChimeraX-OpenCommand: 1.6.2
ChimeraX-PDB: 2.5.1
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.1
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.0.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0
ChimeraX-Registration: 1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-ResidueFit: 1.0
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 2.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.4.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.4.1
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0
ChimeraX-Shortcuts: 1.1
ChimeraX-ShowAttr: 1.0
ChimeraX-ShowSequences: 1.0
ChimeraX-SideView: 1.0
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.6
ChimeraX-STL: 1.0
ChimeraX-Storm: 1.0
ChimeraX-Struts: 1.0
ChimeraX-Surface: 1.0
ChimeraX-SwapAA: 2.0
ChimeraX-SwapRes: 2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1
ChimeraX-ToolshedUtils: 1.2
ChimeraX-Tug: 1.0
ChimeraX-UI: 1.10.1
ChimeraX-uniprot: 2.1
ChimeraX-UnitCell: 1.0
ChimeraX-ViewDockX: 1.0.1
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0
ChimeraX-WebServices: 1.0
ChimeraX-Zone: 1.0
colorama: 0.4.4
comtypes: 1.1.10
cxservices: 1.0
cycler: 0.10.0
Cython: 0.29.23
decorator: 4.4.2
distlib: 0.3.1
docutils: 0.17.1
filelock: 3.0.12
funcparserlib: 0.3.6
grako: 3.16.5
h5py: 3.3.0
html2text: 2020.1.16
idna: 2.10
ihm: 0.20
imagecodecs: 2021.4.28
imagesize: 1.2.0
ipykernel: 5.5.5
ipython: 7.23.1
ipython-genutils: 0.2.0
jedi: 0.18.0
Jinja2: 2.11.3
jupyter-client: 6.1.12
jupyter-core: 4.7.1
kiwisolver: 1.3.1
lxml: 4.6.3
lz4: 3.1.3
MarkupSafe: 1.1.1
matplotlib: 3.4.2
matplotlib-inline: 0.1.2
msgpack: 1.0.2
netCDF4: 1.5.6
networkx: 2.5.1
numexpr: 2.7.3
numpy: 1.21.0
numpydoc: 1.1.0
openvr: 1.16.801
packaging: 21.0
ParmEd: 3.2.0
parso: 0.8.2
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 8.2.0
pip: 21.1.1
pkginfo: 1.7.0
prompt-toolkit: 3.0.19
psutil: 5.8.0
ptyprocess: 0.7.0
pycollada: 0.7.1
pydicom: 2.1.2
Pygments: 2.9.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 2.4.7
PyQt5-commercial: 5.15.2
PyQt5-sip: 12.8.1
PyQtWebEngine-commercial: 5.15.2
python-dateutil: 2.8.1
pytz: 2021.1
pyzmq: 22.1.0
qtconsole: 5.1.0
QtPy: 1.9.0
RandomWords: 0.3.0
requests: 2.25.1
scipy: 1.6.3
setuptools: 57.0.0
sfftk-rw: 0.7.0.post1
six: 1.16.0
snowballstemmer: 2.1.0
sortedcontainers: 2.4.0
Sphinx: 4.0.1
sphinxcontrib-applehelp: 1.0.2
sphinxcontrib-blockdiag: 2.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
suds-jurko: 0.6
tifffile: 2021.4.8
tinyarray: 1.2.3
tornado: 6.1
traitlets: 5.0.5
urllib3: 1.26.6
wcwidth: 0.2.5
webcolors: 1.11.1
wheel: 0.36.2
wheel-filename: 1.3.0
Change History (2)
comment:1 by , 4 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Command Line |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash registering webcam command |
comment:2 by , 4 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
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ChimeraX crashed saving a session when importing QtMultimedia which is a massive Qt window toolkit library. The ultimate cause is a but in the Qt window toolkit. I tried the webcam command on a mac laptop with macOS 11.6 and it did not crash. Reporter is using macOS 12.0.1 (Monterey).
I hope this crash does not happen every time you save a session.
The session saving should not be importing QtMultimedia. For some reason session saving is registering every command that has an alias and this includes the obscure webcam command. Registering the webcam command imports QtMultimedia. Session save needs to be fixed to not register every command with an alias. I'll make a separate ticket for that.
Same crash as #5787.