Opened 3 years ago

Closed 3 years ago

#7950 closed defect (can't reproduce)

Crash in event loop at startup

Reported by: chimerax-bug-report@… Owned by: Eric Pettersen
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-10.16-x86_64-i386-64bit
ChimeraX Version: 1.5rc202211032258 (2022-11-03 22:58:04 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Thread 0x0000700016b3a000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 576 in _handle_results
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000700015b37000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 528 in _handle_tasks
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000700014b34000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/selectors.py", line 416 in select
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/connection.py", line 936 in wait
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.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/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 519 in _handle_workers
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000700013b31000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000700012b2e000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000700011b2b000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000700010b28000 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Current thread 0x000000010bcef600 (most recent call first):
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 283 in event_loop
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 884 in init
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1035 in 
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
  File "/private/var/folders/hj/cs667dcd3v96h2kr39scrd2w0000gn/T/AppTranslocation/3C07D292-26D8-4AF7-9E43-2F0CCA5162DF/d/ChimeraX-1.5-rc2022.11.03.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":"2022-11-04 16:32:19.00 -0500","app_version":"1.5.0","slice_uuid":"5df621ee-554e-36a8-b448-93b2334e5480","build_version":"1.5.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 12.5 (21G72)","incident_id":"BF3CC6DE-BD53-464A-AC2D-2D85F6027F4A","name":"ChimeraX"}
{
  "uptime" : 1100000,
  "procLaunch" : "2022-11-04 16:29:18.5927 -0500",
  "procRole" : "Foreground",
  "version" : 2,
  "userID" : 501,
  "deployVersion" : 210,
  "modelCode" : "MacBookPro14,1",
  "procStartAbsTime" : 1162243223802980,
  "coalitionID" : 123851,
  "osVersion" : {
    "train" : "macOS 12.5",
    "build" : "21G72",
    "releaseType" : "User"
  },
  "captureTime" : "2022-11-04 16:31:49.7911 -0500",
  "incident" : "BF3CC6DE-BD53-464A-AC2D-2D85F6027F4A",
  "bug_type" : "309",
  "pid" : 39348,
  "procExitAbsTime" : 1162393958148400,
  "cpuType" : "X86-64",
  "procName" : "ChimeraX",
  "procPath" : "\/Volumes\/VOLUME\/*\/ChimeraX-1.5-rc2022.11.03.app\/Contents\/MacOS\/ChimeraX",
  "bundleInfo" : {"CFBundleShortVersionString":"1.5.0","CFBundleVersion":"1.5.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
  "storeInfo" : {"deviceIdentifierForVendor":"32A976C2-7F6C-589C-936E-3444D3481A97","thirdParty":true},
  "parentProc" : "launchd",
  "parentPid" : 1,
  "coalitionName" : "edu.ucsf.cgl.ChimeraX",
  "crashReporterKey" : "63966BA4-1C2F-D2CF-AC7D-60FC56B7F349",
  "wakeTime" : 3837,
  "sleepWakeUUID" : "BF46A99B-7DF6-4178-B98D-28534A11527D",
  "sip" : "enabled",
  "vmRegionInfo" : "0x18 is not in any region.  Bytes before following region: 140737486462952\n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      UNUSED SPACE AT START\n--->  \n      VM_ALLOCATE              7fffffe32000-7fffffe33000 [    4K] r-x\/r-x SM=ALI  ",
  "isCorpse" : 1,
  "exception" : {"codes":"0x0000000000000001, 0x0000000000000018","rawCodes":[1,24],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000018"},
  "vmregioninfo" : "0x18 is not in any region.  Bytes before following region: 140737486462952\n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      UNUSED SPACE AT START\n--->  \n      VM_ALLOCATE              7fffffe32000-7fffffe33000 [    4K] r-x\/r-x SM=ALI  ",
  "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" : [{"queue":"com.apple.main-thread","instructionState":{"instructionStream":{"bytes":[65,86,83,72,137,251,72,141,5,55,71,95,0,72,137,7,76,139,119,16,77,133,246,116,24,65,131,126,16,0,116,9,73,141,126,16,232,141,100,86,0,76,137,247,232,77,120,86,0,72,137,223,232,3,193,255,255,72,137,223,91,65,94,93,233,57,120,86,0,15,31,128,0,0,0,0,85,72,137,229,93,195,102,46,15,31,132,0,0,0,0,0,85,72,137,229,72,139,79,8,72,141,65,240,72,133,201,72,15,68,193,93,195,102,46,15,31,132,0,0,0,0,0,144,85,72,137,229,83,80,72,137,251,72,139,71,8,72,141,120,240,72,133,192,72,15,68,248,49,246,232,33,72,1,0,72,133,192,116,36,72,139,67,8,72,141,120,240,72,133,192,72,15,68,248,49,246,232,6,72,1,0,72,137,199,72,131,196,8,91,93,233],"offset":96}},"frames":[{"imageOffset":32782,"symbol":"__pthread_kill","symbolLocation":10,"imageIndex":0},{"imageOffset":25087,"symbol":"pthread_kill","symbolLocation":263,"imageIndex":1},{"imageOffset":279256,"symbol":"raise","symbolLocation":26,"imageIndex":2},{"imageOffset":15869,"symbol":"_sigtramp","symbolLocation":29,"imageIndex":3},{"imageOffset":0,"imageIndex":4},{"imageOffset":467378,"imageIndex":5},{"imageOffset":3604913,"symbol":"-[NSTextInputContext(NSInputContext_WithCompletion) selectedRangeWithCompletionHandler:]","symbolLocation":92,"imageIndex":6},{"imageOffset":2407740,"symbol":"-[NSTextInputContext handleTSMEvent:completionHandler:]","symbolLocation":1611,"imageIndex":6},{"imageOffset":2406016,"symbol":"_NSTSMEventHandler","symbolLocation":299,"imageIndex":6},{"imageOffset":33613,"symbol":"DispatchEventToHandlers(EventTargetRec*, OpaqueEventRef*, HandlerCallRec*)","symbolLocation":1365,"imageIndex":7},{"imageOffset":30620,"symbol":"SendEventToEventTargetInternal(OpaqueEventRef*, OpaqueEventTargetRef*, HandlerCallRec*)","symbolLocation":333,"imageIndex":7},{"imageOffset":30269,"symbol":"SendEventToEventTargetWithOptions","symbolLocation":45,"imageIndex":7},{"imageOffset":403427,"symbol":"SendTSMEvent_WithCompletionHandler","symbolLocation":442,"imageIndex":7},{"imageOffset":2165131,"symbol":"TrySendTextInput_SendEvent_WithContinuationHandler","symbolLocation":402,"imageIndex":7},{"imageOffset":2159074,"symbol":"SendTextInputEvent_WithCompletionHandler","symbolLocation":1175,"imageIndex":7},{"imageOffset":2556705,"symbol":"-[IMKInputSession _postEvent:completionHandler:]","symbolLocation":156,"imageIndex":7},{"imageOffset":2632160,"symbol":"-[IMKInputSession selectedRange_withCompletionHandler:]","symbolLocation":285,"imageIndex":7},{"imageOffset":2558894,"symbol":"__49-[IMKInputSession 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    "uuid" : "1eae6074-8612-3bc6-b16b-c173a995e90c",
    "path" : "\/Volumes\/VOLUME\/*\/ChimeraX-1.5-rc2022.11.03.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/lib-dynload\/_queue.cpython-39-darwin.so",
    "name" : "_queue.cpython-39-darwin.so"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4327792640,
    "size" : 20480,
    "uuid" : "2f042ce6-bef0-3ad9-97f5-2da7655122a4",
    "path" : "\/Volumes\/VOLUME\/*\/ChimeraX-1.5-rc2022.11.03.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/lib-dynload\/select.cpython-39-darwin.so",
    "name" : "select.cpython-39-darwin.so"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703235166208,
    "CFBundleShortVersionString" : "1.600.0",
    "CFBundleIdentifier" : "com.apple.SkyLight",
    "size" : 3796992,
    "uuid" : "01618d26-b265-396b-bbea-d730ba46d7ff",
    "path" : "\/System\/Library\/PrivateFrameworks\/SkyLight.framework\/Versions\/A\/SkyLight",
    "name" : "SkyLight"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703149686784,
    "size" : 290816,
    "uuid" : "5115c8ef-bc57-32db-91c6-71b61a79966e",
    "path" : "\/usr\/lib\/system\/libdispatch.dylib",
    "name" : "libdispatch.dylib"
  }
],
  "sharedCache" : {
  "base" : 140703148216320,
  "size" : 19331678208,
  "uuid" : "cc386fb1-8c26-3cb7-8329-cc63095fca7d"
},
  "vmSummary" : "ReadOnly portion of Libraries: Total=1.4G resident=0K(0%) swapped_out_or_unallocated=1.4G(100%)\nWritable regions: Total=1.0G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.0G(100%)\n\n                                VIRTUAL   REGION \nREGION TYPE                        SIZE    COUNT (non-coalesced) \n===========                     =======  ======= \nAccelerate framework               384K        3 \nActivity Tracing                   256K        1 \nCG backing stores                 1920K        4 \nCG image                           120K        6 \nColorSync                          224K       26 \nCoreAnimation                      116K        8 \nCoreGraphics                        12K        2 \nCoreUI image data                 2088K       13 \nFoundation                          16K        1 \nKernel Alloc Once                   28K        2 \nMALLOC                           304.4M      461 \nMALLOC guard page                   32K        8 \nMALLOC_LARGE (reserved)            384K        1         reserved VM address space (unallocated)\nMALLOC_NANO (reserved)           384.0M        1         reserved VM address space (unallocated)\nMach message                        16K        2 \nObjC additional data                15K        1 \nOpenGL GLSL                        384K        4 \nSTACK GUARD                        120K       30 \nStack                            274.2M       31 \nStack Guard                       56.0M        1 \nVM_ALLOCATE                       66.0M       58 \n__CTF                               756        1 \n__DATA                            44.4M      652 \n__DATA_CONST                      32.4M      339 \n__DATA_DIRTY                      1641K      213 \n__FONT_DATA                          4K        1 \n__GLSLBUILTINS                    5176K        1 \n__LINKEDIT                       674.0M      134 \n__TEXT                           802.8M      656 \n__UNICODE                          592K        1 \ndyld private memory               1184K        3 \nmapped file                      114.9M       43 \nshared memory                     2984K       26 \n===========                     =======  ======= \nTOTAL                              2.7G     2734 \nTOTAL, minus reserved VM space     2.3G     2734 \n",
  "legacyInfo" : {
  "threadTriggered" : {
    "name" : "CrBrowserMain",
    "queue" : "com.apple.main-thread"
  }
},
  "trialInfo" : {
  "rollouts" : [
    {
      "rolloutId" : "60f8ddccefea4203d95cbeef",
      "factorPackIds" : {

      },
      "deploymentId" : 240000021
    },
    {
      "rolloutId" : "6112e14f37f5d11121dcd519",
      "factorPackIds" : {
        "SIRI_TEXT_TO_SPEECH" : "634710168e8be655c1316aaa"
      },
      "deploymentId" : 240000229
    }
  ],
  "experiments" : [

  ]
}
}
===== 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: 1.5rc202211032258 (2022-11-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.5rc202211032258 (2022-11-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 4.1 INTEL-18.8.4
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 640
OpenGL vendor: Intel Inc.

Python: 3.9.11
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: MacBookPro14,1
      Processor Name: Dual-Core Intel Core i5
      Processor Speed: 2.3 GHz
      Number of Processors: 1
      Total Number of Cores: 2
      L2 Cache (per Core): 256 KB
      L3 Cache: 4 MB
      Hyper-Threading Technology: Enabled
      Memory: 8 GB
      System Firmware Version: 451.140.1.0.0
      OS Loader Version: 540.120.3~19
      SMC Version (system): 2.43f11

Software:

    System Software Overview:

      System Version: macOS 12.5 (21G72)
      Kernel Version: Darwin 21.6.0
      Time since boot: 21 days 19:27

Graphics/Displays:

    Intel Iris Plus Graphics 640:

      Chipset Model: Intel Iris Plus Graphics 640
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x5926
      Revision ID: 0x0006
      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


Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.1.0
    Babel: 2.11.0
    backcall: 0.2.0
    blockdiag: 3.0.0
    build: 0.8.0
    certifi: 2021.10.8
    cftime: 1.6.2
    charset-normalizer: 2.1.1
    ChimeraX-AddCharge: 1.4
    ChimeraX-AddH: 2.2.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.6
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.41.5
    ChimeraX-AtomicLibrary: 8.0.3
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3
    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: 2.7.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.1
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.2
    ChimeraX-CommandLine: 1.2.4
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.5rc202211032258
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.3
    ChimeraX-DockPrep: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 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: 1.1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.1
    ChimeraX-MatchMaker: 2.0.9
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.8
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.6
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.1
    ChimeraX-MouseModes: 1.1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.9.1
    ChimeraX-PDB: 2.6.8
    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-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0.1
    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
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.7.2
    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
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.1.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.24.3
    ChimeraX-uniprot: 2.2.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.1.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.1
    ChimeraX-WebServices: 1.1.0
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.5
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.3
    decorator: 5.1.1
    docutils: 0.19
    entrypoints: 0.4
    executing: 1.2.0
    filelock: 3.7.1
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.33
    imagecodecs: 2022.7.31
    imagesize: 1.4.1
    importlib-metadata: 5.0.0
    ipykernel: 6.15.3
    ipython: 8.4.0
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.1.2
    jupyter-client: 7.3.4
    jupyter-core: 4.11.2
    kiwisolver: 1.4.4
    line-profiler: 3.5.1
    lxml: 4.9.1
    lz4: 4.0.2
    MarkupSafe: 2.1.1
    matplotlib: 3.5.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.0
    networkx: 2.8.5
    numexpr: 2.8.4
    numpy: 1.23.1
    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: 9.2.0
    pip: 22.2.2
    pkginfo: 1.8.3
    prompt-toolkit: 3.0.32
    psutil: 5.9.1
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.12.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    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: 2022.6
    pyzmq: 24.0.1
    qtconsole: 5.3.1
    QtPy: 2.2.1
    RandomWords: 0.4.0
    requests: 2.28.1
    scipy: 1.9.0
    setuptools: 65.1.1
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 5.1.1
    sphinx-autodoc-typehints: 1.19.1
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 3.0.0
    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
    stack-data: 0.6.0
    tables: 3.7.0
    tifffile: 2022.7.31
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.3.0
    typing-extensions: 4.4.0
    urllib3: 1.26.12
    wcwidth: 0.2.5
    webcolors: 1.12
    wheel: 0.37.1
    wheel-filename: 1.4.1
    zipp: 3.10.0

Change History (2)

comment:1 by Eric Pettersen, 3 years ago

Cc: Tom Goddard added
Component: Unassigned → Core
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Crash in event loop at startup

comment:2 by Eric Pettersen, 3 years ago

Resolution: → can't reproduce
Status: accepted → closed
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