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Opened 2 years ago
Closed 2 years ago
#9100 closed defect (can't reproduce)
Crash in event loop
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | 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-12.2.1-arm64-arm-64bit
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Bus error
Thread 0x000000028e8af000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 576 in _handle_results
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000028d8a3000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 528 in _handle_tasks
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000028c897000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/selectors.py", line 416 in select
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/connection.py", line 936 in wait
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 499 in _wait_for_updates
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 519 in _handle_workers
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000028b88b000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000028a87f000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x0000000289873000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x0000000288867000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000028785b000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x000000028684f000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x0000000285843000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Thread 0x0000000284837000 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap
Current thread 0x00000001026e4580 (most recent call first):
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 275 in event_loop
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 892 in init
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1043 in
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
File "/private/var/folders/yl/8gg55_g540vd2ht20hp9gfc00000gn/T/AppTranslocation/DCF94705-626E-49C9-8B2A-17EC2466B818/d/ChimeraX-1.6.1.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":"2023-05-31 17:07:34.00 +1000","app_version":"","slice_uuid":"a5992708-d5b4-36ec-ac0a-e525f6105b56","build_version":"","platform":1,"share_with_app_devs":1,"is_first_party":1,"bug_type":"309","os_version":"macOS 12.2.1 (21D62)","incident_id":"FBE4FD85-649A-46A4-892E-94C3AD5C74FB","name":"ChimeraX"}
{
"uptime" : 440,
"procLaunch" : "2023-05-31 17:06:07.0408 +1000",
"procRole" : "Unspecified",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookAir10,1",
"procStartAbsTime" : 8526863932,
"coalitionID" : 1104,
"osVersion" : {
"train" : "macOS 12.2.1",
"build" : "21D62",
"releaseType" : "User"
},
"captureTime" : "2023-05-31 17:07:33.9064 +1000",
"incident" : "FBE4FD85-649A-46A4-892E-94C3AD5C74FB",
"bug_type" : "309",
"pid" : 1080,
"procExitAbsTime" : 10611367444,
"translated" : false,
"cpuType" : "ARM-64",
"procName" : "ChimeraX",
"procPath" : "\/private\/var\/folders\/*\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX",
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "C366B2D3-C96F-4AD3-11CA-8B30E4302849",
"responsiblePid" : 1056,
"sip" : "enabled",
"vmRegionInfo" : "0x10bb93104 is in 0x10bb90000-0x10bb94000; bytes after start: 12548 bytes before end: 3835\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n VM_ALLOCATE 10bb50000-10bb90000 [ 256K] rw-\/rwx SM=PRV \n---> mapped file 10bb90000-10bb94000 [ 16K] r-x\/rwx SM=COW ...t_id=55e77273\n mapped file 10bb94000-10bb98000 [ 16K] r--\/rwx SM=COW ...t_id=54fa1973",
"isCorpse" : 1,
"exception" : {"codes":"0x000000000000000a, 0x000000010bb93104","rawCodes":[10,4491653380],"type":"EXC_BAD_ACCESS","signal":"SIGBUS","subtype":"KERN_MEMORY_ERROR at 0x000000010bb93104"},
"ktriageinfo" : "VM - Object is not alive\n",
"vmregioninfo" : "0x10bb93104 is in 0x10bb90000-0x10bb94000; bytes after start: 12548 bytes before end: 3835\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n VM_ALLOCATE 10bb50000-10bb90000 [ 256K] rw-\/rwx SM=PRV \n---> mapped file 10bb90000-10bb94000 [ 16K] r-x\/rwx SM=COW ...t_id=55e77273\n mapped file 10bb94000-10bb98000 [ 16K] r--\/rwx SM=COW ...t_id=54fa1973",
"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" : [{"id":12554,"frames":[{"imageOffset":7645944248,"imageIndex":0},{"imageOffset":7645129892,"imageIndex":0},{"imageOffset":7646250212,"imageIndex":0},{"imageOffset":4384272860,"imageIndex":0},{"imageOffset":4384000112,"imageIndex":0},{"imageOffset":4384877512,"imageIndex":0},{"imageOffset":4384866948,"imageIndex":0},{"imageOffset":4384002044,"imageIndex":0},{"imageOffset":4384877416,"imageIndex":0},{"imageOffset":4384866948,"imageIndex":0},{"imageOffset":4384881296,"imageIndex":0},{"imageOffset":4384843516,"imageIndex":0},{"imageOffset":4385132660,"imageIndex":0},{"imageOffset":4384830576,"imageIndex":0},{"imageOffset":4384270732,"imageIndex":0},{"imageOffset":4384877416,"imageIndex":0},{"imageOffset":4384866948,"imageIndex":0},{"imageOffset":4384881296,"imageIndex":0},{"imageOffset":4384001920,"imageIndex":0},{"imageOffset":4384877416,"imageIndex":0},{"imageOffset":4384866948,"imageIndex":0},{"imageOffset":4384881296,"imageIndex":0},{"imageOffset":4384843516,"imageIndex":0},{"imageOffset":4384830628,"imageIndex":0},{"imageOffset":4384270732,"imageIndex":0},{"imageOffset":4384877416,"imageIndex":0},{"imageOffset":4384866948,"imageIndex":0},{"imageOffset":4384881296,"imageIndex":0},{"imageOffset":4384001920,"imageIndex":0},{"imageOffset":4384877416,"imageIndex":0},{"imageOffset":4384866948,"imageIndex":0},{"imageOffset":4384881296,"imageIndex":0},{"imageOffset":4384001920,"imageIndex":0},{"imageOffset":4385250980,"imageIndex":0},{"imageOffset":4385248488,"imageIndex":0},{"imageOffset":4385250644,"imageIndex":0},{"imageOffset":4385250292,"imageIndex":0},{"imageOffset":4372184404,"imageIndex":0},{"imageOffset":20724,"symbol":"start","symbolLocation":520,"imageIndex":1}],"triggered":true},{"id":12573,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]},{"id":12574,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]},{"id":12575,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]},{"id":12576,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]},{"id":12577,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]},{"id":12578,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]},{"id":12579,"frames":[{"imageOffset":7645925568,"imageIndex":0},{"imageOffset":4493368160,"imageIndex":0},{"imageOffset":7646155328,"imageIndex":0},{"imageOffset":7646134308,"imageIndex":0}]}],
"usedImages" : [
{
"size" : 0,
"source" : "A",
"base" : 0,
"uuid" : "00000000-0000-0000-0000-000000000000"
},
{
"source" : "P",
"arch" : "arm64e",
"base" : 4375445504,
"size" : 393216,
"uuid" : "d21a73ea-79cd-36eb-8ac9-2c5cf5181a27",
"path" : "\/usr\/lib\/dyld",
"name" : "dyld"
}
],
"sharedCache" : {
"base" : 7642955776,
"size" : 3091218432,
"uuid" : "296eb28e-6aeb-3129-8fa6-feb92261a4eb"
},
"vmSummary" : "ReadOnly portion of Libraries: Total=608K resident=0K(0%) swapped_out_or_unallocated=608K(100%)\nWritable regions: Total=1.5G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.5G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nKernel Alloc Once 32K 1 \nMALLOC 240.2M 30 \nMALLOC guard page 96K 5 \nMALLOC_MEDIUM (reserved) 600.0M 5 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated)\nSTACK GUARD 112K 7 \nStack 11.7M 8 \nStack Guard 56.0M 1 \nVM_ALLOCATE 1.1G 89 \nVM_ALLOCATE (reserved) 160.0M 2 reserved VM address space (unallocated)\n__DATA 16K 1 \n__DATA_CONST 96K 1 \n__LINKEDIT 224K 1 \n__TEXT 384K 1 \ndyld private memory 1024K 1 \nmapped file 42.8M 196 \nshared memory 32K 2 \n=========== ======= ======= \nTOTAL 2.6G 352 \nTOTAL, minus reserved VM space 1.5G 352 \n",
"legacyInfo" : {
"threadTriggered" : {
}
},
"trialInfo" : {
"rollouts" : [
{
"rolloutId" : "607844aa04477260f58a8077",
"factorPackIds" : {
"SIRI_MORPHUN_ASSETS" : "6103050cbfe6dc472e1c982a"
},
"deploymentId" : 240000066
},
{
"rolloutId" : "60da5e84ab0ca017dace9abf",
"factorPackIds" : {
},
"deploymentId" : 240000008
},
{
"rolloutId" : "602ad4dac86151000cf27e46",
"factorPackIds" : {
"SIRI_DICTATION_ASSETS" : "61fb0e87c773c43cde3bb80e"
},
"deploymentId" : 240000305
},
{
"rolloutId" : "60356660bbe37970735c5624",
"factorPackIds" : {
},
"deploymentId" : 240000027
},
{
"rolloutId" : "601d9415f79519000ccd4b69",
"factorPackIds" : {
"SIRI_TEXT_TO_SPEECH" : "622657ce37186c771d5404ad"
},
"deploymentId" : 240000416
},
{
"rolloutId" : "60186475825c62000ccf5450",
"factorPackIds" : {
},
"deploymentId" : 240000026
},
{
"rolloutId" : "63582c5f8a53461413999550",
"factorPackIds" : {
},
"deploymentId" : 240000002
},
{
"rolloutId" : "5fb4245a1bbfe8005e33a1e1",
"factorPackIds" : {
},
"deploymentId" : 240000021
},
{
"rolloutId" : "5ffde50ce2aacd000d47a95f",
"factorPackIds" : {
},
"deploymentId" : 240000271
},
{
"rolloutId" : "5fc94383418129005b4e9ae0",
"factorPackIds" : {
},
"deploymentId" : 240000614
},
{
"rolloutId" : "60f8ddccefea4203d95cbeef",
"factorPackIds" : {
},
"deploymentId" : 240000025
},
{
"rolloutId" : "5f72dc58705eff005a46b3a9",
"factorPackIds" : {
},
"deploymentId" : 240000015
}
],
"experiments" : [
{
"treatmentId" : "6dd670af-0633-45e4-ae5f-122ae4df02be",
"experimentId" : "64406ba83deb637ac8a04419",
"deploymentId" : 900000005
},
{
"treatmentId" : "b7255a7d-caf6-4b10-b2e1-28936518ab9a",
"experimentId" : "63b8ec83fd1d345f491884ba",
"deploymentId" : 400000024
}
]
},
"reportNotes" : [
"thread_get_state(PAGEIN) returned 0x10000003: (ipc\/send) invalid destination port",
"thread_get_state(EXCEPTION) returned 0x10000003: (ipc\/send) invalid destination port",
"thread_get_state(FLAVOR) returned 0x10000003: (ipc\/send) invalid destination port"
]
}
===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.6.1 (2023-05-09)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 76.3
OpenGL renderer: Apple M1
OpenGL vendor: Apple
Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Air
Model Identifier: MacBookAir10,1
Chip: Apple M1
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 8 GB
System Firmware Version: 7429.81.3
OS Loader Version: 7429.81.3
Software:
System Software Overview:
System Version: macOS 12.2.1 (21D62)
Kernel Version: Darwin 21.3.0
Time since boot: 8 minutes
Graphics/Displays:
Apple M1:
Chipset Model: Apple M1
Type: GPU
Bus: Built-In
Total Number of Cores: 7
Vendor: Apple (0x106b)
Metal Family: Supported, Metal GPUFamily Apple 7
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.2.1
Babel: 2.12.1
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
build: 0.10.0
certifi: 2021.10.8
cftime: 1.6.2
charset-normalizer: 3.1.0
ChimeraX-AddCharge: 1.5.9.1
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.3.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.9.3
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.3
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.43.10
ChimeraX-AtomicLibrary: 10.0.6
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: 2.0.1
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.8
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: 1.0.2
ChimeraX-CheckWaters: 1.3.1
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.3
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.6.1
ChimeraX-CoreFormats: 1.1
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: 1.1.1
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: 1.2.1
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-Label: 1.1.7
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.2
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: 2.0.12
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.9
ChimeraX-ModelPanel: 1.3.7
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.0
ChimeraX-NRRD: 1.0
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.10.1
ChimeraX-PDB: 2.7.2
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
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: 1.1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 3.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.1
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.8.3
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.1
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.10.3
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: 2.2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Topography: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.28.4
ChimeraX-uniprot: 2.2.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.1
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.1.3
contourpy: 1.0.7
cxservices: 1.2.2
cycler: 0.11.0
Cython: 0.29.33
debugpy: 1.6.7
decorator: 5.1.1
docutils: 0.19
executing: 1.2.0
filelock: 3.9.0
fonttools: 4.39.3
funcparserlib: 1.0.1
grako: 3.16.5
h5py: 3.8.0
html2text: 2020.1.16
idna: 3.4
ihm: 0.35
imagecodecs: 2022.2.22
imagesize: 1.4.1
importlib-metadata: 6.6.0
ipykernel: 6.21.1
ipython: 8.10.0
ipython-genutils: 0.2.0
ipywidgets: 8.0.6
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.0.2
jupyter-core: 5.3.0
jupyterlab-widgets: 3.0.7
kiwisolver: 1.4.4
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.2
matplotlib: 3.6.3
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.6
netCDF4: 1.6.2
networkx: 2.8.8
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.4
numpy: 1.23.5
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.3.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 3.5.0
prompt-toolkit: 3.0.38
psutil: 5.9.4
ptyprocess: 0.7.0
pure-eval: 0.2.2
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.14.0
pynrrd: 1.0.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.4.2
PyQt6-Qt6: 6.4.3
PyQt6-sip: 13.4.1
PyQt6-WebEngine-commercial: 6.4.0
PyQt6-WebEngine-Qt6: 6.4.3
python-dateutil: 2.8.2
pytz: 2023.3
pyzmq: 25.0.2
qtconsole: 5.4.0
QtPy: 2.3.1
RandomWords: 0.4.0
requests: 2.28.2
scipy: 1.9.3
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: 2.4.1
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.4
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.1
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
stack-data: 0.6.2
tables: 3.7.0
tcia-utils: 1.2.0
tifffile: 2022.10.10
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.3.1
traitlets: 5.9.0
typing-extensions: 4.5.0
tzdata: 2023.3
urllib3: 1.26.15
wcwidth: 0.2.6
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.7
zipp: 3.15.0
Change History (2)
comment:1 by , 2 years ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
comment:2 by , 2 years ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
| Summary: | ChimeraX bug report submission → Crash in event loop |
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