Crash in event loop after ISOLDE sim start

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Chimera crashes all the time when trying to run Isolde.
Fatal Python error: Aborted

Thread 0x0000000115018600 (most recent call first):
  File "/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
  File "/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 867 in init
  File "/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/ChimeraX_main.py", line 1018 in 
  File "/Applications/ChimeraX-1.3.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
  File "/Applications/ChimeraX-1.3.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":"2022-11-07 19:31:10.00 +0000","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 12.5.1 (21G83)","incident_id":"A0DD89A3-A665-46C8-A859-1101E5B532FE","name":"ChimeraX"}
{
  "uptime" : 2400,
  "procLaunch" : "2022-11-07 19:27:34.0760 +0000",
  "procRole" : "Foreground",
  "version" : 2,
  "userID" : 308582931,
  "deployVersion" : 210,
  "modelCode" : "MacBookPro16,2",
  "procStartAbsTime" : 2234082367912,
  "coalitionID" : 1106,
  "osVersion" : {
    "train" : "macOS 12.5.1",
    "build" : "21G83",
    "releaseType" : "User"
  },
  "captureTime" : "2022-11-07 19:31:05.3613 +0000",
  "incident" : "A0DD89A3-A665-46C8-A859-1101E5B532FE",
  "bug_type" : "309",
  "pid" : 14994,
  "procExitAbsTime" : 2445367306597,
  "cpuType" : "X86-64",
  "procName" : "ChimeraX",
  "procPath" : "\/Applications\/ChimeraX-1.3.app\/Contents\/MacOS\/ChimeraX",
  "bundleInfo" : {"CFBundleShortVersionString":"1.3.0","CFBundleVersion":"1.3.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
  "storeInfo" : {"deviceIdentifierForVendor":"BD30A4B0-CAD4-5117-BEEE-7EEDA8C598E9","thirdParty":true},
  "parentProc" : "launchd",
  "parentPid" : 1,
  "coalitionName" : "edu.ucsf.cgl.ChimeraX",
  "crashReporterKey" : "EA0F72F8-F30B-35B0-0742-8DFF759A31C0",
  "wakeTime" : 229,
  "bridgeVersion" : {"build":"19P6066","train":"6.6"},
  "sleepWakeUUID" : "F48B8BCF-7263-422D-AEAF-AB67F5A0FB6E",
  "sip" : "enabled",
  "isCorpse" : 1,
  "exception" : {"codes":"0x0000000000000000, 0x0000000000000000","rawCodes":[0,0],"type":"EXC_CRASH","signal":"SIGABRT"},
  "asi" : {"libsystem_c.dylib":["abort() called"]},
  "asiSignatures" : ["Graphics hardware encountered an error and was reset: 0x00000002\n"],
  "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" : 33,
  "threads" : [{"id":95022,"name":"CrBrowserMain","queue":"com.apple.main-thread","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":525213,"symbol":"__CFRunLoopServiceMachPort","symbolLocation":319,"imageIndex":1},{"imageOffset":518696,"symbol":"__CFRunLoopRun","symbolLocation":1276,"imageIndex":1},{"imageOffset":515692,"symbol":"CFRunLoopRunSpecific","symbolLocation":562,"imageIndex":1},{"imageOffset":189926,"symbol":"RunCurrentEventLoopInMode","symbolLocation":292,"imageIndex":2},{"imageOffset":189258,"symbol":"ReceiveNextEventCommon","symbolLocation":594,"imageIndex":2},{"imageOffset":188645,"symbol":"_BlockUntilNextEventMatchingListInModeWithFilter","symbolLocation":70,"imageIndex":2},{"imageOffset":257965,"symbol":"_DPSNextEvent","symbolLocation":927,"imageIndex":3},{"imageOffset":251498,"symbol":"-[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:]","symbolLocation":1394,"imageIndex":3},{"imageOffset":195865,"symbol":"-[NSApplication run]","symbolLocation":586,"imageIndex":3},{"imageOffset":235055,"symbol":"QCocoaEventDispatcher::processEvents(QFlags)","symbolLocation":2495,"imageIndex":4},{"imageOffset":2050767,"symbol":"QEventLoop::exec(QFlags)","symbolLocation":431,"imageIndex":5},{"imageOffset":2068546,"symbol":"QCoreApplication::exec()","symbolLocation":130,"imageIndex":5},{"imageOffset":2344706,"symbol":"meth_QApplication_exec_(_object*, _object*)","symbolLocation":82,"imageIndex":6},{"imageOffset":503917,"symbol":"cfunction_call","symbolLocation":125,"imageIndex":7},{"imageOffset":246141,"symbol":"_PyObject_MakeTpCall","symbolLocation":365,"imageIndex":7},{"imageOffset":1132060,"symbol":"call_function","symbolLocation":876,"imageIndex":7},{"imageOffset":1120947,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25219,"imageIndex":7},{"imageOffset":248136,"symbol":"function_code_fastcall","symbolLocation":104,"imageIndex":7},{"imageOffset":256394,"symbol":"method_vectorcall","symbolLocation":202,"imageIndex":7},{"imageOffset":1131916,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1120947,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25219,"imageIndex":7},{"imageOffset":1135235,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":248017,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1131916,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1121099,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25371,"imageIndex":7},{"imageOffset":1135235,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":1095435,"symbol":"PyEval_EvalCode","symbolLocation":139,"imageIndex":7},{"imageOffset":1082770,"symbol":"builtin_exec","symbolLocation":626,"imageIndex":7},{"imageOffset":501866,"symbol":"cfunction_vectorcall_FASTCALL","symbolLocation":218,"imageIndex":7},{"imageOffset":1131916,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1121099,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25371,"imageIndex":7},{"imageOffset":1135235,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":248017,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1131916,"symbol":"call_function","symbolLocation":732,"imageIndex":7},{"imageOffset":1121099,"symbol":"_PyEval_EvalFrameDefault","symbolLocation":25371,"imageIndex":7},{"imageOffset":1135235,"symbol":"_PyEval_EvalCode","symbolLocation":2611,"imageIndex":7},{"imageOffset":248017,"symbol":"_PyFunction_Vectorcall","symbolLocation":289,"imageIndex":7},{"imageOffset":1551904,"symbol":"pymain_run_module","symbolLocation":208,"imageIndex":7},{"imageOffset":1549623,"symbol":"Py_RunMain","symbolLocation":1431,"imageIndex":7},{"imageOffset":1551167,"symbol":"pymain_main","symbolLocation":223,"imageIndex":7},{"imageOffset":1550923,"symbol":"Py_Main","symbolLocation":43,"imageIndex":7},{"imageOffset":3528,"symbol":"main","symbolLocation":120,"imageIndex":8},{"imageOffset":21806,"symbol":"start","symbolLocation":462,"imageIndex":9}]},{"id":95040,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95041,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95042,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":3377823,"symbol":"blas_thread_server","symbolLocation":207,"imageIndex":11},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95094,"name":"ThreadPoolServiceThread","frames":[{"imageOffset":43210,"symbol":"kevent64","symbolLocation":10,"imageIndex":0},{"imageOffset":45272682,"symbol":"base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*)","symbolLocation":330,"imageIndex":12},{"imageOffset":45272263,"symbol":"base::MessagePumpKqueue::Run(base::MessagePump::Delegate*)","symbolLocation":167,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44829332,"symbol":"base::internal::ServiceThread::Run(base::RunLoop*)","symbolLocation":20,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95096,"name":"ThreadPoolBackgroundWorker","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":44869496,"symbol":"base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*)","symbolLocation":56,"imageIndex":12},{"imageOffset":44872016,"symbol":"base::internal::WorkerThread::RunWorker()","symbolLocation":1024,"imageIndex":12},{"imageOffset":44870724,"symbol":"base::internal::WorkerThread::RunBackgroundPooledWorker()","symbolLocation":20,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95097,"name":"Chrome_IOThread","frames":[{"imageOffset":43210,"symbol":"kevent64","symbolLocation":10,"imageIndex":0},{"imageOffset":45272682,"symbol":"base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*)","symbolLocation":330,"imageIndex":12},{"imageOffset":45272263,"symbol":"base::MessagePumpKqueue::Run(base::MessagePump::Delegate*)","symbolLocation":167,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":111124230,"symbol":"content::BrowserProcessSubThread::IOThreadRun(base::RunLoop*)","symbolLocation":102,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95098,"name":"NetworkConfigWatcher","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44343771,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":171,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95099,"name":"ThreadPoolForegroundWorker","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":44869496,"symbol":"base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*)","symbolLocation":56,"imageIndex":12},{"imageOffset":44872016,"symbol":"base::internal::WorkerThread::RunWorker()","symbolLocation":1024,"imageIndex":12},{"imageOffset":44870868,"symbol":"base::internal::WorkerThread::RunPooledWorker()","symbolLocation":20,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95102,"name":"CompositorTileWorker1","frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":45194776,"symbol":"base::ConditionVariable::Wait()","symbolLocation":104,"imageIndex":12},{"imageOffset":64820728,"symbol":"non-virtual thunk to cc::SingleThreadTaskGraphRunner::Run()","symbolLocation":56,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95103,"name":"Chrome_InProcGpuThread","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":44343823,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":223,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95104,"name":"Chrome_ChildIOThread","frames":[{"imageOffset":43210,"symbol":"kevent64","symbolLocation":10,"imageIndex":0},{"imageOffset":45272682,"symbol":"base::MessagePumpKqueue::DoInternalWork(base::MessagePump::Delegate::NextWorkInfo*)","symbolLocation":330,"imageIndex":12},{"imageOffset":45272263,"symbol":"base::MessagePumpKqueue::Run(base::MessagePump::Delegate*)","symbolLocation":167,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95107,"name":"NetworkConfigWatcher","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44343771,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":171,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95108,"name":"VizCompositorThread","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44343771,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":171,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95121,"name":"NetworkConfigWatcher","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44343771,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":171,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95122,"name":"ThreadPoolSingleThreadForegroundBlocking0","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44869482,"symbol":"base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*)","symbolLocation":42,"imageIndex":12},{"imageOffset":44872016,"symbol":"base::internal::WorkerThread::RunWorker()","symbolLocation":1024,"imageIndex":12},{"imageOffset":44870964,"symbol":"base::internal::WorkerThread::RunDedicatedWorker()","symbolLocation":20,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95143,"name":"MemoryInfra","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44343771,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":171,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95171,"name":"NetworkConfigWatcher","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44343771,"symbol":"base::MessagePumpDefault::Run(base::MessagePump::Delegate*)","symbolLocation":171,"imageIndex":12},{"imageOffset":44783147,"symbol":"base::sequence_manager::internal::ThreadControllerWithMessagePumpImpl::Run(bool, base::TimeDelta)","symbolLocation":139,"imageIndex":12},{"imageOffset":44537803,"symbol":"base::RunLoop::Run()","symbolLocation":395,"imageIndex":12},{"imageOffset":44911229,"symbol":"base::Thread::ThreadMain()","symbolLocation":413,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95186,"name":"ThreadPoolSingleThreadSharedBackgroundBlocking1","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":45229202,"symbol":"base::WaitableEvent::TimedWait(base::TimeDelta const&)","symbolLocation":434,"imageIndex":12},{"imageOffset":45228751,"symbol":"base::WaitableEvent::Wait()","symbolLocation":31,"imageIndex":12},{"imageOffset":44869482,"symbol":"base::internal::WorkerThread::Delegate::WaitForWork(base::WaitableEvent*)","symbolLocation":42,"imageIndex":12},{"imageOffset":44871229,"symbol":"base::internal::WorkerThread::RunWorker()","symbolLocation":237,"imageIndex":12},{"imageOffset":44870772,"symbol":"base::internal::WorkerThread::RunBackgroundSharedWorker()","symbolLocation":20,"imageIndex":12},{"imageOffset":45211143,"symbol":"base::(anonymous namespace)::ThreadFunc(void*)","symbolLocation":87,"imageIndex":12},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":95202,"name":"com.apple.NSEventThread","frames":[{"imageOffset":6522,"symbol":"mach_msg_trap","symbolLocation":10,"imageIndex":0},{"imageOffset":7400,"symbol":"mach_msg","symbolLocation":56,"imageIndex":0},{"imageOffset":525213,"symbol":"__CFRunLoopServiceMachPort","symbolLocation":319,"imageIndex":1},{"imageOffset":518696,"symbol":"__CFRunLoopRun","symbolLocation":1276,"imageIndex":1},{"imageOffset":515692,"symbol":"CFRunLoopRunSpecific","symbolLocation":562,"imageIndex":1},{"imageOffset":1755598,"symbol":"_NSEventThread","symbolLocation":132,"imageIndex":3},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96078,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":3379947,"symbol":"blas_thread_server","symbolLocation":619,"imageIndex":13},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96079,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":3379947,"symbol":"blas_thread_server","symbolLocation":619,"imageIndex":13},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96080,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":3379947,"symbol":"blas_thread_server","symbolLocation":619,"imageIndex":13},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96869,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96870,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96871,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96872,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96873,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96874,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96875,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96876,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":518355,"symbol":"OpenMM::threadBody(void*)","symbolLocation":195,"imageIndex":14},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96877,"frames":[{"imageOffset":17386,"symbol":"__psynch_cvwait","symbolLocation":10,"imageIndex":0},{"imageOffset":27247,"symbol":"_pthread_cond_wait","symbolLocation":1249,"imageIndex":10},{"imageOffset":1147731,"symbol":"threadBody(void*)","symbolLocation":115,"imageIndex":15},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96879,"frames":[{"imageOffset":8008,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":10}]},{"triggered":true,"id":96892,"threadState":{"r13":{"value":140239360881216},"rax":{"value":0},"rflags":{"value":582},"cpu":{"value":0},"r14":{"value":6},"rsi":{"value":6},"r8":{"value":123145323559584},"cr2":{"value":140241344331280},"rdx":{"value":0},"r10":{"value":123145323565056},"r9":{"value":12603666058412179101},"r15":{"value":22},"rbx":{"value":123145323565056},"trap":{"value":133},"err":{"value":33554760},"r11":{"value":582},"rip":{"value":140703170633742,"matchesCrashFrame":1},"rbp":{"value":123145323558368},"rsp":{"value":123145323558328},"r12":{"value":134955},"rcx":{"value":123145323558328},"flavor":"x86_THREAD_STATE","rdi":{"value":134955}},"queue":"opencl_runtime","frames":[{"imageOffset":32782,"symbol":"__pthread_kill","symbolLocation":10,"imageIndex":0},{"imageOffset":25087,"symbol":"pthread_kill","symbolLocation":263,"imageIndex":10},{"imageOffset":279256,"symbol":"raise","symbolLocation":26,"imageIndex":16},{"imageOffset":15869,"symbol":"_sigtramp","symbolLocation":29,"imageIndex":17},{"imageOffset":4417830912,"imageIndex":18},{"imageOffset":531748,"symbol":"abort","symbolLocation":123,"imageIndex":16},{"imageOffset":5679,"symbol":"gpusGenerateCrashLog","symbolLocation":157,"imageIndex":19},{"imageOffset":13433129,"symbol":"gpusKillClientExt","symbolLocation":9,"imageIndex":20},{"imageOffset":8160,"symbol":"gpusQueueSubmitDataBuffers","symbolLocation":162,"imageIndex":19},{"imageOffset":1659074,"symbol":"IntelCLCommandBuffer::getNew(GLDQueueRec*)","symbolLocation":32,"imageIndex":20},{"imageOffset":1658819,"symbol":"intelSubmitCLCommands(GLDQueueRec*, unsigned int)","symbolLocation":69,"imageIndex":20},{"imageOffset":1658640,"symbol":"CHAL_INTEL::ChalContext::ChalFlush()","symbolLocation":82,"imageIndex":20},{"imageOffset":1658493,"symbol":"gldFinishQueue","symbolLocation":43,"imageIndex":20},{"imageOffset":71375,"imageIndex":21},{"imageOffset":72462,"imageIndex":21},{"imageOffset":176224,"imageIndex":21},{"imageOffset":183534,"imageIndex":21},{"imageOffset":13079,"symbol":"_dispatch_client_callout","symbolLocation":8,"imageIndex":22},{"imageOffset":67566,"symbol":"_dispatch_lane_barrier_sync_invoke_and_complete","symbolLocation":60,"imageIndex":22},{"imageOffset":183162,"imageIndex":21},{"imageOffset":172607,"imageIndex":21},{"imageOffset":137466,"symbol":"clEnqueueReadBuffer","symbolLocation":749,"imageIndex":21},{"imageOffset":16470,"symbol":"OpenMM::OpenCLArray::download(void*, bool) const","symbolLocation":118,"imageIndex":15},{"imageOffset":106928,"symbol":"OpenMM::OpenCLContext::reduceEnergy()","symbolLocation":400,"imageIndex":15},{"imageOffset":201039,"symbol":"OpenMM::OpenCLCalcForcesAndEnergyKernel::finishComputation(OpenMM::ContextImpl&, bool, bool, int, bool&)","symbolLocation":255,"imageIndex":15},{"imageOffset":61649,"symbol":"OpenMM::ContextImpl::calcForcesAndEnergy(bool, bool, int)","symbolLocation":177,"imageIndex":14},{"imageOffset":42790,"symbol":"OpenMM::Context::getState(int, bool, int) const","symbolLocation":294,"imageIndex":14},{"imageOffset":52520,"symbol":"evaluate(void*, double const*, double*, int, double)","symbolLocation":344,"imageIndex":23},{"imageOffset":70321,"symbol":"line_search_backtracking","symbolLocation":1313,"imageIndex":23},{"imageOffset":58129,"symbol":"lbfgs","symbolLocation":3745,"imageIndex":23},{"imageOffset":49909,"symbol":"isolde::LocalEnergyMinimizer::minimize(OpenMM::Context&, double, int)","symbolLocation":1061,"imageIndex":23},{"imageOffset":17172,"symbol":"isolde::OpenMM_Thread_Handler::_minimize_threaded(double const&, int)","symbolLocation":196,"imageIndex":23},{"imageOffset":34966,"symbol":"void* std::__1::__thread_proxy >, void (isolde::OpenMM_Thread_Handler::*)(double const&, int), isolde::OpenMM_Thread_Handler*, double, int> >(void*)","symbolLocation":70,"imageIndex":23},{"imageOffset":25825,"symbol":"_pthread_start","symbolLocation":125,"imageIndex":10},{"imageOffset":8043,"symbol":"thread_start","symbolLocation":15,"imageIndex":10}]},{"id":96937,"frames":[{"imageOffset":8008,"symbol":"start_wqthread","symbolLocation":0,"imageIndex":10}]}],
  "usedImages" : [
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703170600960,
    "size" : 229376,
    "uuid" : "792406fe-2224-3c14-ba9f-f076fd7839d2",
    "path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
    "name" : "libsystem_kernel.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64h",
    "base" : 140703171145728,
    "CFBundleShortVersionString" : "6.9",
    "CFBundleIdentifier" : "com.apple.CoreFoundation",
    "size" : 5255168,
    "uuid" : "c39123bf-9d62-3577-a11f-0a97cc4d9991",
    "path" : "\/System\/Library\/Frameworks\/CoreFoundation.framework\/Versions\/A\/CoreFoundation",
    "name" : "CoreFoundation",
    "CFBundleVersion" : "1866"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703318986752,
    "CFBundleShortVersionString" : "2.1.1",
    "CFBundleIdentifier" : "com.apple.HIToolbox",
    "size" : 3096576,
    "uuid" : "95eab511-8fc1-353a-ac8a-26aa19032e2e",
    "path" : "\/System\/Library\/Frameworks\/Carbon.framework\/Versions\/A\/Frameworks\/HIToolbox.framework\/Versions\/A\/HIToolbox",
    "name" : "HIToolbox"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703215681536,
    "CFBundleShortVersionString" : "6.9",
    "CFBundleIdentifier" : "com.apple.AppKit",
    "size" : 15269888,
    "uuid" : "bcb46e9b-acd5-3b26-878f-a3988bc5df7e",
    "path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
    "name" : "AppKit",
    "CFBundleVersion" : "2113.60.148"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4729200640,
    "size" : 1503232,
    "uuid" : "d4ab240b-4535-3aec-b72b-5ffc4750e4e5",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt5\/Qt\/plugins\/platforms\/libqcocoa.dylib",
    "name" : "libqcocoa.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4487991296,
    "size" : 5705728,
    "uuid" : "c723812a-f7a5-3001-98d5-e60e8daa6ffb",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt5\/Qt\/lib\/QtCore.framework\/Versions\/5\/QtCore",
    "name" : "QtCore"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4633292800,
    "size" : 2691072,
    "uuid" : "259274fb-9944-3b14-95c0-acb6f7b3f7d7",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt5\/QtWidgets.abi3.so",
    "name" : "QtWidgets.abi3.so"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4421447680,
    "CFBundleShortVersionString" : "3.9.6, (c) 2001-2019 Python Software Foundation.",
    "CFBundleIdentifier" : "org.python.python",
    "size" : 2510848,
    "uuid" : "7fdc4a6b-e70b-3c9e-a72e-cd15ddf0d90f",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/Python",
    "name" : "Python",
    "CFBundleVersion" : "3.9.6"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4416647168,
    "CFBundleShortVersionString" : "1.3.0",
    "CFBundleIdentifier" : "edu.ucsf.cgl.ChimeraX",
    "size" : 4096,
    "uuid" : "9596eff5-d2be-396c-9c4e-6177235c3dae",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/MacOS\/ChimeraX",
    "name" : "ChimeraX",
    "CFBundleVersion" : "1.3.0.0"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4646862848,
    "size" : 442368,
    "uuid" : "f71fb3ca-5fcc-3577-9457-b047888a46d1",
    "path" : "\/usr\/lib\/dyld",
    "name" : "dyld"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703170830336,
    "size" : 49152,
    "uuid" : "f32b6d06-b156-3da0-b086-a31cf011362b",
    "path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
    "name" : "libsystem_pthread.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4500844544,
    "size" : 62603264,
    "uuid" : "9112000d-375c-34f0-9a66-9d68f91a12cd",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/numpy\/.dylibs\/libopenblas.0.dylib",
    "name" : "libopenblas.0.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4921847808,
    "size" : 131002368,
    "uuid" : "86651daf-3bff-3a6f-b313-e84d303e55eb",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/PyQt5\/Qt\/lib\/QtWebEngineCore.framework\/Versions\/5\/QtWebEngineCore",
    "name" : "QtWebEngineCore"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 6102097920,
    "size" : 61087744,
    "uuid" : "6286b1a0-1fc3-3620-a830-7af7902ead7f",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/scipy\/.dylibs\/libopenblas.0.dylib",
    "name" : "libopenblas.0.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4784627712,
    "size" : 2195456,
    "uuid" : "b75e2a1b-22bb-388f-bebd-91ae10f2b866",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/lib\/libOpenMM.7.6.dylib",
    "name" : "libOpenMM.7.6.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 4781416448,
    "size" : 1929216,
    "uuid" : "a07ecf21-6a6b-35be-a77f-9d4fd3c7c0ff",
    "path" : "\/Applications\/ChimeraX-1.3.app\/Contents\/lib\/plugins\/libOpenMMOpenCL.dylib",
    "name" : "libOpenMMOpenCL.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703169585152,
    "size" : 561152,
    "uuid" : "e8499aa8-6800-372f-bd48-82846d88c6cb",
    "path" : "\/usr\/lib\/system\/libsystem_c.dylib",
    "name" : "libsystem_c.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703170928640,
    "size" : 40960,
    "uuid" : "bd2bd848-f9c9-35ff-9795-32d31977523d",
    "path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
    "name" : "libsystem_platform.dylib"
  },
  {
    "size" : 0,
    "source" : "A",
    "base" : 0,
    "uuid" : "00000000-0000-0000-0000-000000000000"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140707739369472,
    "size" : 45056,
    "uuid" : "70dbae7f-ef73-322f-a710-8258ad9acd6a",
    "path" : "\/System\/Library\/PrivateFrameworks\/GPUSupport.framework\/Versions\/A\/Libraries\/libGPUSupportMercury.dylib",
    "name" : "libGPUSupportMercury.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140712059654144,
    "CFBundleShortVersionString" : "18.8.4",
    "CFBundleIdentifier" : "com.apple.driver.AppleIntelICLGraphicsGLDriver",
    "size" : 15745024,
    "uuid" : "885cd46c-984c-30c7-bd03-69d311f33515",
    "path" : "\/System\/Library\/Extensions\/AppleIntelICLGraphicsGLDriver.bundle\/Contents\/MacOS\/AppleIntelICLGraphicsGLDriver",
    "name" : "AppleIntelICLGraphicsGLDriver",
    "CFBundleVersion" : "18.0.8"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140712201285632,
    "CFBundleShortVersionString" : "4.7",
    "CFBundleIdentifier" : "com.apple.opencl",
    "size" : 360448,
    "uuid" : "01bcc0fc-aef7-3749-81a1-b0aec2535467",
    "path" : "\/System\/Library\/Frameworks\/OpenCL.framework\/Versions\/A\/OpenCL",
    "name" : "OpenCL",
    "CFBundleVersion" : "4.7"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 140703169044480,
    "size" : 290816,
    "uuid" : "5115c8ef-bc57-32db-91c6-71b61a79966e",
    "path" : "\/usr\/lib\/system\/libdispatch.dylib",
    "name" : "libdispatch.dylib"
  },
  {
    "source" : "P",
    "arch" : "x86_64",
    "base" : 5618851840,
    "size" : 81920,
    "uuid" : "722da143-5bec-3fd3-b9c5-0663a0843da2",
    "path" : "\/Users\/USER\/Library\/Application Support\/ChimeraX\/*\/libopenmm.dylib",
    "name" : "libopenmm.dylib"
  }
],
  "sharedCache" : {
  "base" : 140703167574016,
  "size" : 19331678208,
  "uuid" : "4d3a144c-02bb-31f1-bca9-83a5cb058c59"
},
  "vmSummary" : "ReadOnly portion of Libraries: Total=1.6G resident=0K(0%) swapped_out_or_unallocated=1.6G(100%)\nWritable regions: Total=5.0G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=5.0G(100%)\n\n                                VIRTUAL   REGION \nREGION TYPE                        SIZE    COUNT (non-coalesced) \n===========                     =======  ======= \nAccelerate framework               512K        4 \nActivity Tracing                   256K        1 \nCG backing stores                 2160K        4 \nCG image                           528K       39 \nColorSync                          232K       28 \nCoreAnimation                      244K       21 \nCoreGraphics                        12K        2 \nCoreUI image data                 5156K       40 \nFoundation                          36K        2 \nKernel Alloc Once                    8K        1 \nMALLOC                             3.0G     1664 \nMALLOC guard page                   32K        7 \nMALLOC_LARGE (reserved)            640K        2         reserved VM address space (unallocated)\nMALLOC_NANO (reserved)           384.0M        1         reserved VM address space (unallocated)\nMach message                        24K        5 \nObjC additional data                15K        1 \nOpenCL                             1.1G       96 \nOpenCL (reserved)                 6372K        4         reserved VM address space (unallocated)\nOpenGL GLSL                        384K        4 \nSTACK GUARD                       56.1M       35 \nStack                            137.8M       35 \nVM_ALLOCATE                      327.6M      149 \nVM_ALLOCATE (reserved)            96.0M        2         reserved VM address space (unallocated)\n__CTF                               756        1 \n__DATA                            45.2M      766 \n__DATA_CONST                      32.5M      340 \n__DATA_DIRTY                      1641K      214 \n__FONT_DATA                          4K        1 \n__GLSLBUILTINS                    5176K        1 \n__LINKEDIT                       753.3M      218 \n__TEXT                           894.0M      744 \n__UNICODE                          592K        1 \ndyld private memory               1056K        2 \nmapped file                      480.9M       60 \nshared memory                     2976K       25 \n===========                     =======  ======= \nTOTAL                              7.3G     4520 \nTOTAL, minus reserved VM space     6.8G     4520 \n",
  "legacyInfo" : {
  "threadTriggered" : {
    "queue" : "opencl_runtime"
  }
},
  "trialInfo" : {
  "rollouts" : [
    {
      "rolloutId" : "6112dda2fc54bc3389840642",
      "factorPackIds" : {
        "SIRI_DICTATION_ASSETS" : "620aec83b02b354d3afd2f50"
      },
      "deploymentId" : 240000145
    },
    {
      "rolloutId" : "60356660bbe37970735c5624",
      "factorPackIds" : {

      },
      "deploymentId" : 240000027
    }
  ],
  "experiments" : [

  ]
}
}
===== Log before crash start =====
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/butryna/Desktop/124_5RA/j229/229-coot_fixed.pdb format pdb

Chain information for 229-coot_fixed.pdb #1  
---  
Chain | Description  
2 | No description available  
3 | No description available  
4 | No description available  
5 | No description available  
6 | No description available  
7 | No description available  
8 | No description available  
A | No description available  
B | No description available  
C | No description available  
D | No description available  
E | No description available  
F | No description available  
M | No description available  
N | No description available  
  

> select ::name="AGS"

186 atoms, 198 bonds, 6 residues, 1 model selected  

> delete atoms sel

> delete bonds sel

> save /Users/butryna/Desktop/124_5RA/j229/229-coot_fixed.pdb relModel #1

> open /Users/butryna/Desktop/124_5RA/223_-40/postprocess.mrc

Opened postprocess.mrc as #2, grid size 440,440,440, pixel 0.95, shown at
level 0.00553, step 2, values float32  

> volume #2 step 1

> clipper associate #2 toModel #1

Opened postprocess.mrc as #1.1.1.1, grid size 440,440,440, pixel 0.95, shown
at level 0.0113, step 1, values float32  
Chain information for 229-coot_fixed.pdb  
---  
Chain | Description  
1.2/2 | No description available  
1.2/3 | No description available  
1.2/4 | No description available  
1.2/5 | No description available  
1.2/6 | No description available  
1.2/7 | No description available  
1.2/8 | No description available  
1.2/A | No description available  
1.2/B | No description available  
1.2/C | No description available  
1.2/D | No description available  
1.2/E | No description available  
1.2/F | No description available  
1.2/M | No description available  
1.2/N | No description available  
  

> isolde start

> set selectionWidth 4

ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
chains...  
ISOLDE: Corrected atom nomenclature of 321 residues in model #1.2 to IUPAC-IUB
standards.  
Done loading forcefield  

> addh

Summary of feedback from adding hydrogens to 229-coot_fixed.pdb #1.2  
---  
warnings | Not adding hydrogens to /6 CYS 311 CB because it is missing heavy-
atom bond partners  
Not adding hydrogens to /6 CYS 314 CB because it is missing heavy-atom bond
partners  
Not adding hydrogens to /6 CYS 333 CB because it is missing heavy-atom bond
partners  
Not adding hydrogens to /6 CYS 338 CB because it is missing heavy-atom bond
partners  
Not adding hydrogens to /7 LYS 217 CB because it is missing heavy-atom bond
partners  
15 messages similar to the above omitted  
notes | No usable SEQRES records for 229-coot_fixed.pdb (#1.2) chain 2;
guessing termini instead  
No usable SEQRES records for 229-coot_fixed.pdb (#1.2) chain 3; guessing
termini instead  
No usable SEQRES records for 229-coot_fixed.pdb (#1.2) chain 4; guessing
termini instead  
No usable SEQRES records for 229-coot_fixed.pdb (#1.2) chain 5; guessing
termini instead  
No usable SEQRES records for 229-coot_fixed.pdb (#1.2) chain 6; guessing
termini instead  
10 messages similar to the above omitted  
Chain-initial residues that are actual N termini: /2 PRO 201, /3 PRO 17, /4
ARG 178, /5 ILE 27, /6 VAL 103, /7 ALA 4, /8 LEU 13, /A ASN 787, /B LYS 258,
/C ALA 16, /D ASP 46, /E ASN 2, /F SER 271  
Chain-initial residues that are not actual N termini: /2 THR 380, /2 PHE 447,
/2 SER 475, /2 GLN 737, /3 ILE 91, /3 HIS 151, /3 SER 273, /3 LEU 314, /3 ASP
344, /3 VAL 651, /4 ASN 218, /4 LEU 456, /4 LYS 854, /5 ASN 130, /5 GLN 253,
/5 SER 319, /5 LYS 365, /5 GLY 408, /5 GLY 591, /6 GLU 260, /6 ASP 447, /6 ARG
499, /6 THR 902, /7 LYS 59, /7 ASP 101, /7 GLU 190, /7 LEU 393, /8 VAL 87, /8
GLU 184, /8 SER 436, /8 ASN 459, /B VAL 355, /B GLY 506, /C GLU 55, /C ASP
180, /C LEU 509, /D THR 171, /D ILE 207, /E SER 319, /E ASN 372, /E SER 412,
/F ARG 393  
Chain-final residues that are actual C termini: /D LEU 529  
Chain-final residues that are not actual C termini: /2 TYR 864, /2 LEU 334, /2
TYR 434, /2 ARG 459, /2 HIS 707, /3 LEU 738, /3 ALA 53, /3 HIS 141, /3 MET
264, /3 ASN 310, /3 LEU 329, /3 ARG 570, /4 ARG 928, /4 GLU 214, /4 PRO 443,
/4 ASP 846, /5 SER 693, /5 ALA 110, /5 LEU 172, /5 GLY 306, /5 ILE 342, /5 GLY
395, /5 GLY 578, /6 HIS 978, /6 SER 200, /6 ASP 406, /6 GLY 463, /6 SER 834,
/7 SER 723, /7 ASP 31, /7 GLY 96, /7 SER 163, /7 LYS 386, /8 LEU 595, /8 PHE
77, /8 ASN 157, /8 ILE 415, /8 THR 449, /A GLU 907, /B GLY 506, /B LEU 343, /B
MET 498, /C GLY 615, /C PRO 27, /C HIS 159, /C PRO 499, /D HIS 158, /D SER
190, /E ASP 476, /E LEU 299, /E LYS 353, /E PRO 395, /F ALA 430, /F PHE 389  
4401 hydrogen bonds  
Adding 'H' to /2 THR 380  
Adding 'H' to /2 PHE 447  
Adding 'H' to /2 SER 475  
Adding 'H' to /2 GLN 737  
Adding 'H' to /3 ILE 91  
37 messages similar to the above omitted  
/2 TYR 864 is not terminus, removing H atom from 'C'  
/3 LEU 738 is not terminus, removing H atom from 'C'  
/4 ARG 928 is not terminus, removing H atom from 'C'  
/5 SER 693 is not terminus, removing H atom from 'C'  
/6 HIS 978 is not terminus, removing H atom from 'C'  
7 messages similar to the above omitted  
50767 hydrogens added  
  

> select #1

101671 atoms, 102701 bonds, 42 pseudobonds, 6233 residues, 13 models selected  
Map is too large for fast cubic interpolation on the GPU! Switching to slower,
more memory-efficient implementation.  

Populating font family aliases took 352 ms. Replace uses of missing font
family "Carlito" with one that exists to avoid this cost.  

ISOLDE: started sim  


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

Log:
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 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 OpenGL Engine
OpenGL vendor: Intel Inc.Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro16,2
      Processor Name: Quad-Core Intel Core i5
      Processor Speed: 2 GHz
      Number of Processors: 1
      Total Number of Cores: 4
      L2 Cache (per Core): 512 KB
      L3 Cache: 6 MB
      Hyper-Threading Technology: Enabled
      Memory: 16 GB
      System Firmware Version: 1731.140.2.0.0 (iBridge: 19.16.16066.0.0,0)
      OS Loader Version: 540.120.3~19

Software:

    System Software Overview:

      System Version: macOS 12.5.1 (21G83)
      Kernel Version: Darwin 21.6.0
      Time since boot: 2:16

Graphics/Displays:

    Intel Iris Plus Graphics:

      Chipset Model: Intel Iris Plus Graphics
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x8a53
      Revision ID: 0x0007
      Metal Family: Supported, Metal GPUFamily macOS 2
      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

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: 1.5.1.1
    charset-normalizer: 2.0.9
    ChimeraX-AddCharge: 1.2.2
    ChimeraX-AddH: 2.1.11
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.2.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.31
    ChimeraX-AtomicLibrary: 4.2
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.0
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.6.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.2
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.2
    ChimeraX-Clipper: 0.17.0
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5
    ChimeraX-CommandLine: 1.1.5
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.3
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 1.1.5
    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: 2.1.2
    ChimeraX-Help: 1.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.3
    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: 2.0.4
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.4
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.2.6
    ChimeraX-ModelPanel: 1.2.1
    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: 1.7
    ChimeraX-PDB: 2.6.5
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    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
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.4.6
    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: 1.6.1
    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: 1.13.7
    ChimeraX-uniprot: 2.2
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.0.1
    ChimeraX-VIPERdb: 1.0
    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
    cxservices: 1.1
    cycler: 0.11.0
    Cython: 0.29.24
    decorator: 5.1.0
    docutils: 0.17.1
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 3.6.0
    html2text: 2020.1.16
    idna: 3.3
    ihm: 0.21
    imagecodecs: 2021.4.28
    imagesize: 1.3.0
    ipykernel: 5.5.5
    ipython: 7.23.1
    ipython-genutils: 0.2.0
    jedi: 0.18.0
    Jinja2: 3.0.1
    jupyter-client: 6.1.12
    jupyter-core: 4.9.1
    kiwisolver: 1.3.2
    lxml: 4.6.3
    lz4: 3.1.3
    MarkupSafe: 2.0.1
    matplotlib: 3.4.3
    matplotlib-inline: 0.1.3
    msgpack: 1.0.2
    netCDF4: 1.5.7
    networkx: 2.6.3
    numexpr: 2.8.0
    numpy: 1.21.2
    openvr: 1.16.801
    packaging: 21.0
    ParmEd: 3.2.0
    parso: 0.8.3
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 8.3.2
    pip: 21.2.4
    pkginfo: 1.7.1
    prompt-toolkit: 3.0.23
    psutil: 5.8.0
    ptyprocess: 0.7.0
    pycollada: 0.7.1
    pydicom: 2.1.2
    Pygments: 2.10.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.6
    PyQt5-commercial: 5.15.2
    PyQt5-sip: 12.8.1
    PyQtWebEngine-commercial: 5.15.2
    python-dateutil: 2.8.2
    pytz: 2021.3
    pyzmq: 22.3.0
    qtconsole: 5.1.1
    QtPy: 1.11.3
    RandomWords: 0.3.0
    requests: 2.26.0
    scipy: 1.7.1
    setuptools: 57.5.0
    sfftk-rw: 0.7.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 4.2.0
    sphinx-autodoc-typehints: 1.12.0
    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: 5.1.1
    urllib3: 1.26.7
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.37.0
    wheel-filename: 1.3.0